Schema biotools.json

Location:	E:\repos\GitHub\biotoolsSchema\json\biotools.json
Version:	latest
Definitions:	biotools.json tool EDAMdata EDAMformat biotoolsIdType dataType ontologyConcept textType urlftpType versionType

Document schema biotools.json

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Description   Description of one or more bioinformatics tools - application software with well-defined data processing functions (inputs, outputs and operations). This includes simple tools with one or a few closely related functions, and complex, multimodal tools with many functions. Tools may be available available for immediate use as online services, or in a form which which you can download, install, configure and run yourself.
type	Array
array items	[0]+   tool
source code	{     "$schema": "http://json-schema.org/schema#",     "description": "Description of one or more bioinformatics tools - application software with well-defined data processing functions (inputs, outputs and operations).  This includes simple tools with one or a few closely related functions, and complex, multimodal tools with many functions.  Tools may be available available for immediate use as online services, or in a form which which you can download, install, configure and run yourself.",     "type": "array",     "items": {         "$ref": "#/definitions/tool"     } }

Schema definition tool

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Description   Attributes of a bioinformatics tool.
type	Object
properties	Name    Occurrence name    Required description    Required homepage    Required biotoolsID    Optional biotoolsCURIE    Optional version    Optional otherID    Optional toolType    Optional topic    Optional operatingSystem    Optional language    Optional license    Optional collectionID    Optional maturity    Optional cost    Optional accessibility    Optional elixirPlatform    Optional elixirNode    Optional function    Optional link    Optional download    Optional documentation    Optional relation    Optional publication    Optional credit    Optional
used by	biotools.json
source code	"tool": {     "description": "Attributes of a bioinformatics tool.",     "type": "object",     "properties": {         "name": {             "title": "Tool name",             "description": "Canonical software name assigned by the software developer or service provider.",             "type": "string",             "minLength": 1,             "maxLength": 100,             "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",             "examples": [                 "needle"             ]         },         "description": {             "title": "Tool description",             "description": "Textual description of the software.\nThis can be a few sentences copy-pasted from the software homepage.",             "type": "string",             "minLength": 10,             "maxLength": 1000,             "examples": [                 "needle reads two input sequences and writes their optimal global sequence alignment to file. It uses the Needleman-Wunsch alignment algorithm to find the optimum alignment (including gaps) of two sequences along their entire length. The algorithm uses a dynamic programming method to ensure the alignment is optimum, by exploring all possible alignments and choosing the best."             ]         },         "homepage": {             "$ref": "#/definitions/urlftpType",             "title": "Tool homepage URL",             "description": "Homepage of the software, or some URL that best serves this purpose."         },         "biotoolsID": {             "$ref": "#/definitions/biotoolsIdType",             "title": "bio.tools toolID",             "description": "Unique ID (case insensitive) of the tool that is assigned upon registration of the software in bio.tools, normally identical to tool name.",             "$comment": "bio.tools IDs are set by bio.tools admin and will be disregarded if specified in a payload (e.g. PUSH, POST) to the bio.tools API."         },         "biotoolsCURIE": {             "title": "bio.tools CURIE",             "description": "bio.tools CURIE (compact URI) based on the bio.tools tool ID.",             "$comment": "The bio.tools CURIE is simply the bio.tools tool ID with the prefix 'biotools:'.bio.tools CURIEs are set by bio.tools admin and will be disregarded if specified in a payload (e.g. PUSH, POST) to the bio.tools API.",             "type": "string",             "pattern": "^(biotools\\:[\\--\\.0-9A-Z_a-z]*)$",             "examples": [                 "biotools:signalp"             ]         },         "version": {             "type": "array",             "items": {                 "$ref": "#/definitions/versionType",                 "title": "Tool version information",                 "description": "Version information (typically a version number) of the software applicable to this bio.tools entry."             }         },         "otherID": {             "type": "array",             "items": {                 "title": "Tool unique identifiers",                 "description": "A unique identifier of the software, typically assigned by an ID-assignment authority other than bio.tools.",                 "$comment": "This field is not normally used for bio.tools toolIDs, but could be in the exceptional case that multiple such IDs were needed for a given entry.",                 "type": "object",                 "properties": {                     "type": {                         "title": "Type of tool identifier",                         "description": "Type of tool identifier.",                         "type": "string",                         "enum": [                             "doi",                             "rrid",                             "cpe",                             "biotoolsCURIE"                         ],                         "examples": [                             "doi"                         ]                     },                     "value": {                         "title": "Value of tool identifier",                         "description": "Value of tool identifier.",                         "type": "string",                         "examples": [                             "10.1038/nmeth.1701"                         ],                         "anyOf": [                             {                                 "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$"                             },                             {                                 "pattern": "^((r|r|i|d|RRID)\\:[\\w\\D]+)$"                             },                             {                                 "pattern": "^((c|p|e|CPE)\\:[\\w\\D]+)$"                             },                             {                                 "pattern": "^((B|I|O|T|O|O|L|S|biotools)\\:[\\--\\.0-9A-Z_a-z]*)$"                             }                         ]                     },                     "version": {                         "title": "Tool version information (other IDs)",                         "description": "Version information (typically a version number) of the software applicable to this identifier.",                         "type": "string",                         "minLength": 1,                         "maxLength": 100,                         "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",                         "examples": [                             "2.0 - 2.7"                         ]                     }                 },                 "required": [                     "value"                 ],                 "additionalProperties": false             }         },         "toolType": {             "type": "array",             "items": {                 "title": "Tool type",                 "description": "A type of application software: a discrete software entity can have more than one type.",                 "$comment": "bio.tools includes all types of bioinformatics tools: application software with well-defined data processing functions (inputs, outputs and operations). When registering a tool, one or more tool types may be assigned, reflecting the different facets of the software being described.",                 "type": "string",                 "enum": [                     "Bioinformatics portal",                     "Command-line tool",                     "Database portal",                     "Desktop application",                     "Library",                     "Ontology",                     "Plug-in",                     "Script",                     "SPARQL endpoint",                     "Suite",                     "Web application",                     "Web API",                     "Web service",                     "Workbench",                     "Workflow"                 ]             }         },         "topic": {             "type": "array",             "items": {                 "title": "EDAM topics",                 "description": "General scientific domain the software serves or other general category (EDAM Topic).",                 "$comment": "An EDAM Topic concept URL and / or term are specified, e.g. 'Proteomics', http://edamontology.org/topic_0121.",                 "type": "object",                 "properties": {                     "term": {                         "title": "EDAM topic term",                         "description": "An EDAM Topic term (preferred label or synonym).",                         "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",                         "type": "string",                         "examples": [                             "Proteomics"                         ]                     },                     "uri": {                         "title": "EDAM Topic URI",                         "description": "URL of an EDAM Topic concept.",                         "$comment": "The URL must be in the EDAM Topic namespace, i.e. http://edamontology.org/topic.",                         "type": "string",                         "pattern": "^(http\\://edamontology\\.org/topic_[0-9]{4,4})$",                         "examples": [                             "http://edamontology.org/topic_0121"                         ]                     }                 },                 "additionalProperties": false             }         },         "operatingSystem": {             "type": "array",             "items": {                 "title": "Operating system",                 "description": "The operating system supported by a downloadable software.",                 "type": "string",                 "enum": [                     "Linux",                     "Windows",                     "Mac"                 ]             }         },         "language": {             "type": "array",             "items": {                 "title": "Programming language",                 "description": "Name of programming language, e.g. used for the software source code or compatible with an API.",                 "type": "string",                 "enum": [                     "ActionScript",                     "Ada",                     "AppleScript",                     "Assembly language",                     "AWK",                     "Bash",                     "C",                     "C#",                     "C++",                     "COBOL",                     "ColdFusion",                     "CWL",                     "D",                     "Delphi",                     "Dylan",                     "Eiffel",                     "Forth",                     "Fortran",                     "Groovy",                     "Haskell",                     "Icarus",                     "Java",                     "JavaScript",                     "Julia",                     "JSP",                     "LabVIEW",                     "Lisp",                     "Lua",                     "Maple",                     "Mathematica",                     "MATLAB",                     "MLXTRAN",                     "NMTRAN",                     "OCaml",                     "Pascal",                     "Perl",                     "PHP",                     "Prolog",                     "PyMOL",                     "Python",                     "R",                     "Racket",                     "REXX",                     "Ruby",                     "SAS",                     "Scala",                     "Scheme",                     "Shell",                     "Smalltalk",                     "SQL",                     "Turing",                     "Verilog",                     "VHDL",                     "Visual Basic",                     "XAML",                     "Other"                 ]             }         },         "license": {             "title": "Software or data usage license",             "description": "Software or data usage license.",             "$comment": "Identifier from the SPDX license list (https://spdx.org/licenses/).  In future, based on the supplied license, a label e.g. 'Open-source' may be applied to the entry in bio.tools.  Use 'Proprietary' where the software must be obtained from the provider (e.g. for money), and is then owned.  Use 'Freeware' for proprietary software that is available at no monetary cost. Use 'Not licensed' for software which is not licensed and is not proprietary, and 'Other' for software under license not currently supported by biotoolsSchema. Note that for online services, the license attribute refers to the license of the underlying software or data, or a part of those.",             "type": "string",             "enum": [                 "0BSD",                 "AAL",                 "ADSL",                 "AFL-1.1",                 "AFL-1.2",                 "AFL-2.0",                 "AFL-2.1",                 "AFL-3.0",                 "AGPL-1.0",                 "AGPL-3.0",                 "AMDPLPA",                 "AML",                 "AMPAS",                 "ANTLR-PD",                 "APAFML",                 "APL-1.0",                 "APSL-1.0",                 "APSL-1.1",                 "APSL-1.2",                 "APSL-2.0",                 "Abstyles",                 "Adobe-2006",                 "Adobe-Glyph",                 "Afmparse",                 "Aladdin",                 "Apache-1.0",                 "Apache-1.1",                 "Apache-2.0",                 "Artistic-1.0",                 "Artistic-1.0-Perl",                 "Artistic-1.0-cl8",                 "Artistic-2.0",                 "BSD-2-Clause",                 "BSD-2-Clause-FreeBSD",                 "BSD-2-Clause-NetBSD",                 "BSD-3-Clause",                 "BSD-3-Clause-Attribution",                 "BSD-3-Clause-Clear",                 "BSD-3-Clause-LBNL",                 "BSD-3-Clause-No-Nuclear-License",                 "BSD-3-Clause-No-Nuclear-License-2014",                 "BSD-3-Clause-No-Nuclear-Warranty",                 "BSD-4-Clause",                 "BSD-4-Clause-UC",                 "BSD-Protection",                 "BSD-Source-Code",                 "BSL-1.0",                 "Bahyph",                 "Barr",                 "Beerware",                 "BitTorrent-1.0",                 "BitTorrent-1.1",                 "Borceux",                 "CATOSL-1.1",                 "CC-BY-1.0",                 "CC-BY-2.0",                 "CC-BY-2.5",                 "CC-BY-3.0",                 "CC-BY-4.0",                 "CC-BY-NC-1.0",                 "CC-BY-NC-2.0",                 "CC-BY-NC-2.5",                 "CC-BY-NC-3.0",                 "CC-BY-NC-4.0",                 "CC-BY-NC-ND-1.0",                 "CC-BY-NC-ND-2.0",                 "CC-BY-NC-ND-2.5",                 "CC-BY-NC-ND-3.0",                 "CC-BY-NC-ND-4.0",                 "CC-BY-NC-SA-1.0",                 "CC-BY-NC-SA-2.0",                 "CC-BY-NC-SA-2.5",                 "CC-BY-NC-SA-3.0",                 "CC-BY-NC-SA-4.0",                 "CC-BY-ND-1.0",                 "CC-BY-ND-2.0",                 "CC-BY-ND-2.5",                 "CC-BY-ND-3.0",                 "CC-BY-ND-4.0",                 "CC-BY-SA-1.0",                 "CC-BY-SA-2.0",                 "CC-BY-SA-2.5",                 "CC-BY-SA-3.0",                 "CC-BY-SA-4.0",                 "CC0-1.0",                 "CDDL-1.0",                 "CDDL-1.1",                 "CECILL-1.0",                 "CECILL-1.1",                 "CECILL-2.0",                 "CECILL-2.1",                 "CECILL-B",                 "CECILL-C",                 "CNRI-Jython",                 "CNRI-Python",                 "CNRI-Python-GPL-Compatible",                 "CPAL-1.0",                 "CPL-1.0",                 "CPOL-1.02",                 "CUA-OPL-1.0",                 "Caldera",                 "ClArtistic",                 "Condor-1.1",                 "Crossword",                 "CrystalStacker",                 "Cube",                 "D-FSL-1.0",                 "DOC",                 "DSDP",                 "Dotseqn",                 "ECL-1.0",                 "ECL-2.0",                 "EFL-1.0",                 "EFL-2.0",                 "EPL-1.0",                 "EUDatagrid",                 "EUPL-1.0",                 "EUPL-1.1",                 "Entessa",                 "ErlPL-1.1",                 "Eurosym",                 "FSFAP",                 "FSFUL",                 "FSFULLR",                 "FTL",                 "Fair",                 "Frameworx-1.0",                 "FreeImage",                 "GFDL-1.1",                 "GFDL-1.2",                 "GFDL-1.3",                 "GL2PS",                 "GPL-1.0",                 "GPL-2.0",                 "GPL-3.0",                 "Giftware",                 "Glide",                 "Glulxe",                 "HPND",                 "HaskellReport",                 "IBM-pibs",                 "ICU",                 "IJG",                 "IPA",                 "IPL-1.0",                 "ISC",                 "ImageMagick",                 "Imlib2",                 "Info-ZIP",                 "Intel",                 "Intel-ACPI",                 "Interbase-1.0",                 "JSON",                 "JasPer-2.0",                 "LAL-1.2",                 "LAL-1.3",                 "LGPL-2.0",                 "LGPL-2.1",                 "LGPL-3.0",                 "LGPLLR",                 "LPL-1.0",                 "LPL-1.02",                 "LPPL-1.0",                 "LPPL-1.1",                 "LPPL-1.2",                 "LPPL-1.3a",                 "LPPL-1.3c",                 "Latex2e",                 "Leptonica",                 "LiLiQ-P-1.1",                 "LiLiQ-R-1.1",                 "LiLiQ-Rplus-1.1",                 "Libpng",                 "MIT",                 "MIT-CMU",                 "MIT-advertising",                 "MIT-enna",                 "MIT-feh",                 "MITNFA",                 "MPL-1.0",                 "MPL-1.1",                 "MPL-2.0",                 "MPL-2.0-no-copyleft-exception",                 "MS-PL",                 "MS-RL",                 "MTLL",                 "MakeIndex",                 "MirOS",                 "Motosoto",                 "Multics",                 "Mup",                 "NASA-1.3",                 "NBPL-1.0",                 "NCSA",                 "NGPL",                 "NLOD-1.0",                 "NLPL",                 "NOSL",                 "NPL-1.0",                 "NPL-1.1",                 "NPOSL-3.0",                 "NRL",                 "NTP",                 "Naumen",                 "NetCDF",                 "Newsletr",                 "Nokia",                 "Noweb",                 "Nunit",                 "OCCT-PL",                 "OCLC-2.0",                 "ODbL-1.0",                 "OFL-1.0",                 "OFL-1.1",                 "OGTSL",                 "OLDAP-1.1",                 "OLDAP-1.2",                 "OLDAP-1.3",                 "OLDAP-1.4",                 "OLDAP-2.0",                 "OLDAP-2.0.1",                 "OLDAP-2.1",                 "OLDAP-2.2",                 "OLDAP-2.2.1",                 "OLDAP-2.2.2",                 "OLDAP-2.3",                 "OLDAP-2.4",                 "OLDAP-2.5",                 "OLDAP-2.6",                 "OLDAP-2.7",                 "OLDAP-2.8",                 "OML",                 "OPL-1.0",                 "OSET-PL-2.1",                 "OSL-1.0",                 "OSL-1.1",                 "OSL-2.0",                 "OSL-2.1",                 "OSL-3.0",                 "OpenSSL",                 "PDDL-1.0",                 "PHP-3.0",                 "PHP-3.01",                 "Plexus",                 "PostgreSQL",                 "Python-2.0",                 "QPL-1.0",                 "Qhull",                 "RHeCos-1.1",                 "RPL-1.1",                 "RPL-1.5",                 "RPSL-1.0",                 "RSA-MD",                 "RSCPL",                 "Rdisc",                 "Ruby",                 "SAX-PD",                 "SCEA",                 "SGI-B-1.0",                 "SGI-B-1.1",                 "SGI-B-2.0",                 "SISSL",                 "SISSL-1.2",                 "SMLNJ",                 "SMPPL",                 "SNIA",                 "SPL-1.0",                 "SWL",                 "Saxpath",                 "Sendmail",                 "SimPL-2.0",                 "Sleepycat",                 "Spencer-86",                 "Spencer-94",                 "Spencer-99",                 "SugarCRM-1.1.3",                 "TCL",                 "TMate",                 "TORQUE-1.1",                 "TOSL",                 "UPL-1.0",                 "Unicode-TOU",                 "Unlicense",                 "VOSTROM",                 "VSL-1.0",                 "Vim",                 "W3C",                 "W3C-19980720",                 "WTFPL",                 "Watcom-1.0",                 "Wsuipa",                 "X11",                 "XFree86-1.1",                 "XSkat",                 "Xerox",                 "Xnet",                 "YPL-1.0",                 "YPL-1.1",                 "ZPL-1.1",                 "ZPL-2.0",                 "ZPL-2.1",                 "Zed",                 "Zend-2.0",                 "Zimbra-1.3",                 "Zimbra-1.4",                 "Zlib",                 "bzip2-1.0.5",                 "bzip2-1.0.6",                 "curl",                 "diffmark",                 "dvipdfm",                 "eGenix",                 "gSOAP-1.3b",                 "gnuplot",                 "iMatix",                 "libtiff",                 "mpich2",                 "psfrag",                 "psutils",                 "xinetd",                 "xpp",                 "zlib-acknowledgement",                 "Proprietary",                 "Other",                 "Not licensed",                 "Freeware"             ]         },         "collectionID": {             "type": "array",             "items": {                 "title": "Tool collection ID",                 "description": "A tag which assigns the software to a collection in bio.tools.",                 "type": "string",                 "minLength": 1,                 "maxLength": 100,                 "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",                 "examples": [                     "emboss"                 ]             }         },         "maturity": {             "title": "Sofware product maturity",             "description": "Development stage of the software product.",             "type": "string",             "enum": [                 "Emerging",                 "Mature",                 "Legacy"             ]         },         "cost": {             "title": "Cost",             "description": "Monetary cost of acquiring the software.",             "type": "string",             "enum": [                 "Free of charge",                 "Free of charge (with restrictions)",                 "Commercial"             ]         },         "accessibility": {             "title": "Accessibility",             "description": "Whether an online service is freely available for use.",             "type": "string",             "enum": [                 "Open access",                 "Restricted access"             ]         },         "elixirPlatform": {             "type": "array",             "items": {                 "title": "ELIXIR platform",                 "description": "ELIXIR platform credited for developing or providing the software.",                 "type": "string",                 "enum": [                     "Data",                     "Tools",                     "Compute",                     "Interoperability",                     "Training"                 ]             }         },         "elixirNode": {             "type": "array",             "items": {                 "title": "ELIXIR node",                 "description": "ELIXIR node credited for developing or providing the software - the software is in Node Service Delivery Plan.",                 "type": "string",                 "enum": [                     "Belgium",                     "Czech Republic",                     "Denmark",                     "EMBL",                     "Estonia",                     "Finland",                     "France",                     "Germany",                     "Greece",                     "Hungary",                     "Ireland",                     "Israel",                     "Italy",                     "Luxembourg",                     "Netherlands",                     "Norway",                     "Portugal",                     "Slovenia",                     "Spain",                     "Sweden",                     "Switzerland",                     "UK"                 ]             }         },         "function": {             "type": "array",             "items": {                 "title": "Tool functions",                 "description": "Details of a function (i.e. mode of operation) the software provides, expressed in concepts from the EDAM ontology.",                 "type": "object",                 "properties": {                     "operation": {                         "type": "array",                         "minItems": 1,                         "items": {                             "title": "EDAM Operations",                             "description": "The basic operation(s) performed by this software function (EDAM Operation).",                             "$comment": "An EDAM Operation concept URL and / or term are specified, e.g. 'Multiple sequence alignment', http://edamontology.org/operation_0492.",                             "type": "object",                             "properties": {                                 "term": {                                     "title": "EDAM Operation term",                                     "description": "An EDAM Operation term (preferred label or synonym).",                                     "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",                                     "type": "string",                                     "examples": [                                         "Multiple sequence alignment"                                     ]                                 },                                 "uri": {                                     "title": "EDAM Operation URI",                                     "description": "URL of an EDAM Operation concept. (NOTE: The URL must be in the EDAM Operation namespace, i.e. http://edamontology.org/operation.)",                                     "type": "string",                                     "pattern": "^(http\\://edamontology\\.org/operation_[0-9]{4,4})$",                                     "examples": [                                         "http://edamontology.org/operation_0492"                                     ]                                 }                             },                             "additionalProperties": false                         }                     },                     "input": {                         "type": "array",                         "items": {                             "title": "Tool input",                             "description": "Details of primary input data.",                             "type": "object",                             "properties": {                                 "data": {                                     "$ref": "#/definitions/EDAMdata",                                     "title": "Input data (EDAM Data)",                                     "description": "Type of primary input data, if any (EDAM data).",                                     "$comment": "An EDAM Data concept URL and / or term are specified, e.g. 'Protein sequences', http://edamontology.org/data_2976."                                 },                                 "format": {                                     "title": "EDAM Format concept(s)",                                     "description": "EDAM Format concept(s).",                                     "type": "array",                                     "items": {                                         "$ref": "#/definitions/EDAMformat",                                         "title": "Input format(s) (EDAM Format)",                                         "description": "Allowed format(s) of the input data (EDAM Format). "                                     }                                 }                             },                             "required": [                                 "data"                             ],                             "additionalProperties": false                         }                     },                     "output": {                         "type": "array",                         "items": {                             "title": "Tool output",                             "description": "Details of primary output data.",                             "type": "object",                             "properties": {                                 "data": {                                     "$ref": "#/definitions/EDAMdata",                                     "title": "Output data (EDAM Data)",                                     "description": "Type of primary output data, if any (EDAM Data).",                                     "$comment": "An EDAM Data concept URL and (optionally) term are specified, e.g. 'Sequence alignment', http://edamontology.org/data_0863."                                 },                                 "format": {                                     "title": "EDAM Format concept(s)",                                     "description": "EDAM Foramt concept(s)",                                     "type": "array",                                     "items": {                                         "$ref": "#/definitions/EDAMformat",                                         "title": "Output format(s) (EDAM Format)",                                         "description": "Allowed format(s) of the output data (EDAM Format)."                                     }                                 }                             },                             "required": [                                 "data"                             ],                             "additionalProperties": false                         }                     },                     "note": {                         "title": "Function note",                         "description": "Concise comment about this function, if not apparent from the software description and EDAM annotations.",                         "type": "string",                         "minLength": 10,                         "maxLength": 1000,                         "examples": [                             "Concise comment about this function, if not apparent from the software description and EDAM annotations."                         ]                     },                     "cmd": {                         "title": "Command-line snippet",                         "description": "Relevant command, command-line fragment or option for executing this function / running the tool in this mode.",                         "type": "string",                         "minLength": 1,                         "maxLength": 1000,                         "examples": [                             "-s best"                         ]                     }                 },                 "required": [                     "operation"                 ],                 "additionalProperties": false             }         },         "link": {             "type": "array",             "items": {                 "title": "Miscellaneous link",                 "description": "A miscellaneous link for the software e.g. repository, issue tracker or mailing list.",                 "type": "object",                 "properties": {                     "url": {                         "$ref": "#/definitions/urlftpType",                         "title": "Link URL",                         "description": "A link of some relevance to the software (URL)."                     },                     "type": {                         "type": "array",                         "minItems": 1,                         "items": {                             "title": "Type of link",                             "description": "The type of data, information or system that is obtained when the link is resolved.",                             "type": "string",                             "enum": [                                 "Discussion forum",                                 "Galaxy service",                                 "Helpdesk",                                 "Issue tracker",                                 "Mailing list",                                 "Mirror",                                 "Software catalogue",                                 "Repository",                                 "Service",                                 "Social media",                                 "Technical monitoring",                                 "Other"                             ]                         }                     },                     "note": {                         "$ref": "#/definitions/textType",                         "title": "Link comment",                         "description": "Comment about the link."                     }                 },                 "required": [                     "url",                     "type"                 ],                 "additionalProperties": false             }         },         "download": {             "type": "array",             "items": {                 "title": "Tool downloads",                 "description": "A link to a download for the software, e.g. source code, virtual machine image or container.",                 "type": "object",                 "properties": {                     "url": {                         "$ref": "#/definitions/urlftpType",                         "title": "Download URL",                         "description": "Link to download (or repository providing a download) for the software."                     },                     "type": {                         "title": "Download type",                         "description": "Type of download that is linked to.",                         "type": "string",                         "enum": [                             "API specification",                             "Biological data",                             "Binaries",                             "Command-line specification",                             "Container file",                             "Icon",                             "Software package",                             "Screenshot",                             "Source code",                             "Test data",                             "Test script",                             "Tool wrapper (CWL)",                             "Tool wrapper (Galaxy)",                             "Tool wrapper (Taverna)",                             "Tool wrapper (Other)",                             "VM image",                             "Downloads page",                             "Other"                         ]                     },                     "note": {                         "$ref": "#/definitions/textType",                         "title": "Downlad comment",                         "description": "Comment about the download."                     },                     "version": {                         "$ref": "#/definitions/versionType",                         "title": "Tool version information (download)",                         "description": "Version information (typically a version number) of the software applicable to this download."                     }                 },                 "required": [                     "url",                     "type"                 ],                 "additionalProperties": false             }         },         "documentation": {             "type": "array",             "items": {                 "title": "Tool documentation",                 "description": "A link to documentation about the software e.g. manual, API specification or training material.",                 "type": "object",                 "properties": {                     "url": {                         "$ref": "#/definitions/urlftpType",                         "title": "Documentation URL",                         "description": "Link to documentation on the web for the tool."                     },                     "type": {                         "type": "array",                         "minItems": 1,                         "items": {                             "title": "Documentation type",                             "description": "Type of documentation that is linked to.",                             "type": "string",                             "enum": [                                 "API documentation",                                 "Citation instructions",                                 "Code of conduct",                                 "Command-line options",                                 "Contributions policy",                                 "FAQ",                                 "General",                                 "Governance",                                 "Installation instructions",                                 "User manual",                                 "Release notes",                                 "Terms of use",                                 "Training material",                                 "Other"                             ]                         }                     },                     "note": {                         "$ref": "#/definitions/textType",                         "title": "Documentation comment",                         "description": "Comment about the documentation."                     }                 },                 "required": [                     "url",                     "type"                 ],                 "additionalProperties": false             }         },         "relation": {             "type": "array",             "items": {                 "title": "Tool relationships",                 "description": "Details of a relationship this software shares with other software registered in bio.tools.",                 "type": "object",                 "properties": {                     "type": {                         "title": "Tool relationship type",                         "description": "Type of relation between this and another registered software. (NOTE: Certain relations may only be defined between certain types of tool.)",                         "type": "string",                         "enum": [                             "isNewVersionOf",                             "hasNewVersion",                             "uses",                             "usedBy",                             "includes",                             "includedIn"                         ]                     },                     "biotoolsID": {                         "$ref": "#/definitions/biotoolsIdType",                         "title": "bio.tools toolID",                         "description": "bio.tools ID of an existing bio.tools entry which this software is related to.",                         "$comment": "Relations may only be defined between registered software.  The ID is a URL in the bio.tools namespace and reflects (normally exactly) the tool name and version: see http://biotools.readthedocs.io/."                     }                 },                 "required": [                     "type",                     "biotoolsID"                 ],                 "additionalProperties": false             }         },         "publication": {             "type": "array",             "items": {                 "description": "A publication about the software.",                 "type": "object",                 "properties": {                     "doi": {                         "title": "Publication DOI",                         "description": "Digital Object Identifier (DOI) of a publication about the software.",                         "type": "string",                         "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$",                         "examples": [                             "10.1093/nar/gkv1116"                         ]                     },                     "pmid": {                         "title": "Publication PMID",                         "description": "PubMed Identifier (PMID) of a publication about the software.",                         "type": "string",                         "pattern": "^([1-9][0-9]{0,8})$",                         "examples": [                             "26538599"                         ]                     },                     "pmcid": {                         "title": "Publicaction PMCID",                         "description": "PubMed Central Identifier (PMCID) of a publication about the software.",                         "type": "string",                         "pattern": "^((PMC)[1-9][0-9]{0,8})$",                         "examples": [                             "PMC4702812"                         ]                     },                     "type": {                         "type": "array",                         "items": {                             "title": "Publication type",                             "description": "Type of publication. ",                             "type": "string",                             "enum": [                                 "Primary",                                 "Benchmarking study",                                 "Method",                                 "Usage",                                 "Review",                                 "Other"                             ]                         }                     },                     "note": {                         "$ref": "#/definitions/textType",                         "title": "Publication comment",                         "description": "Comment about the publication."                     },                     "version": {                         "$ref": "#/definitions/versionType",                         "description": "Version information (typically a version number) of the software applicable to this publication."                     }                 },                 "additionalProperties": false             }         },         "credit": {             "type": "array",             "items": {                 "title": "Tool credits",                 "description": "An individual or organisation that should be credited, or may be contacted about the software.",                 "type": "object",                 "properties": {                     "name": {                         "title": "Tool credit name",                         "description": "Name of the entity that is credited.",                         "type": "string",                         "minLength": 1,                         "maxLength": 100                     },                     "email": {                         "title": "Tool credit email",                         "description": "Email address of the entity that is credited.",                         "type": "string",                         "pattern": "^([0-9A-Z_a-z]+(['\\+\\--\\.][0-9A-Z_a-z]+)*@[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*\\.[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*)$"                     },                     "url": {                         "title": "Tool credit URL",                         "description": "URL for the entity that is credited, e.g. homepage of an institute. (NOTE: An HTTP or HTTPS URL.)",                         "type": "string"                     },                     "orcidid": {                         "title": "Tool credit ORCID iD",                         "description": "Unique identifier (ORCID iD) of a person that is credited. (NOTE: Open Researcher and Contributor IDs (ORCID IDs) provide a persistent reference to information on a researcher, see http://orcid.org/.)",                         "type": "string",                         "anyOf": [                             {                                 "pattern": "^(http\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"                             },                             {                                 "pattern": "^(https\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"                             }                         ]                     },                     "gridid": {                         "title": "Tool credit GRID ID",                         "description": "Unique identifier (GRID ID) of an organisation that is credited. (NOTE: Global Research Identifier Database (GRID) IDs provide a persistent reference to information on research organisations, see https://www.grid.ac/.)",                         "type": "string",                         "pattern": "^(grid[\\w\\D][0-9]{4,}[\\w\\D][0-9a-f]{1,2})$"                     },                     "typeEntity": {                         "title": "Tool credit entity type",                         "description": "Type of entity that is credited.",                         "type": "string",                         "enum": [                             "Person",                             "Project",                             "Division",                             "Institute",                             "Consortium",                             "Funding agency"                         ]                     },                     "typeRole": {                         "type": "array",                         "items": {                             "title": "Tool credit role type",                             "description": "Role performed by entity that is credited.",                             "type": "string",                             "enum": [                                 "Primary contact",                                 "Contributor",                                 "Developer",                                 "Documentor",                                 "Maintainer",                                 "Provider",                                 "Support"                             ]                         }                     },                     "note": {                         "$ref": "#/definitions/textType",                         "title": "Tool credit comment",                         "description": "A comment about the credit.\nThis can elaborate on the contribution of the credited entity."                     }                 },                 "required": [                     "name"                 ],                 "additionalProperties": false             }         }     },     "required": [         "name",         "description",         "homepage"     ],     "additionalProperties": false }

Property tool / name

diagram
property details	Occurrence   Required
schema details	Title   Tool name Description   Canonical software name assigned by the software developer or service provider.
type	String
string constraints	Min Length   1 Max Length   100 Pattern   ^([ \(-\)\+-\.0-;A-Z_a-z  ᠎ -   　]*)$
examples	Type    Value string    needle
source code	"name": {     "title": "Tool name",     "description": "Canonical software name assigned by the software developer or service provider.",     "type": "string",     "minLength": 1,     "maxLength": 100,     "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",     "examples": [         "needle"     ] }

Property tool / description

diagram
property details	Occurrence   Required
schema details	Title   Tool description Description   Textual description of the software. This can be a few sentences copy-pasted from the software homepage.
type	String
string constraints	Min Length   10 Max Length   1000
examples	Type    Value string    needle reads two input sequences and writes their optimal global sequence alignment to file. It uses the Needleman-Wunsch alignment algorithm to find the optimum alignment (including gaps) of two sequences along their entire length. The algorithm uses a dynamic programming method to ensure the alignment is optimum, by exploring all possible alignments and choosing the best.
source code	"description": {     "title": "Tool description",     "description": "Textual description of the software.\nThis can be a few sentences copy-pasted from the software homepage.",     "type": "string",     "minLength": 10,     "maxLength": 1000,     "examples": [         "needle reads two input sequences and writes their optimal global sequence alignment to file. It uses the Needleman-Wunsch alignment algorithm to find the optimum alignment (including gaps) of two sequences along their entire length. The algorithm uses a dynamic programming method to ensure the alignment is optimum, by exploring all possible alignments and choosing the best."     ] }

Property tool / homepage

diagram
property details	Occurrence   Required
reference	urlftpType
source code	"homepage": {     "$ref": "#/definitions/urlftpType",     "title": "Tool homepage URL",     "description": "Homepage of the software, or some URL that best serves this purpose." }

Property tool / biotoolsID

diagram
property details	Occurrence   Optional
reference	biotoolsIdType
source code	"biotoolsID": {     "$ref": "#/definitions/biotoolsIdType",     "title": "bio.tools toolID",     "description": "Unique ID (case insensitive) of the tool that is assigned upon registration of the software in bio.tools, normally identical to tool name.",     "$comment": "bio.tools IDs are set by bio.tools admin and will be disregarded if specified in a payload (e.g. PUSH, POST) to the bio.tools API." }

Property tool / biotoolsCURIE

diagram
property details	Occurrence   Optional
schema details	Title   bio.tools CURIE Description   bio.tools CURIE (compact URI) based on the bio.tools tool ID. Comment   The bio.tools CURIE is simply the bio.tools tool ID with the prefix 'biotools:'.bio.tools CURIEs are set by bio.tools admin and will be disregarded if specified in a payload (e.g. PUSH, POST) to the bio.tools API.
type	String
string constraints	Pattern   ^(biotools\:[\--\.0-9A-Z_a-z]*)$
examples	Type    Value string    biotools:signalp
source code	"biotoolsCURIE": {     "title": "bio.tools CURIE",     "description": "bio.tools CURIE (compact URI) based on the bio.tools tool ID.",     "$comment": "The bio.tools CURIE is simply the bio.tools tool ID with the prefix 'biotools:'.bio.tools CURIEs are set by bio.tools admin and will be disregarded if specified in a payload (e.g. PUSH, POST) to the bio.tools API.",     "type": "string",     "pattern": "^(biotools\\:[\\--\\.0-9A-Z_a-z]*)$",     "examples": [         "biotools:signalp"     ] }

Property tool / version

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   versionType
source code	"version": {     "type": "array",     "items": {         "$ref": "#/definitions/versionType",         "title": "Tool version information",         "description": "Version information (typically a version number) of the software applicable to this bio.tools entry."     } }

Property tool / otherID

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"otherID": {     "type": "array",     "items": {         "title": "Tool unique identifiers",         "description": "A unique identifier of the software, typically assigned by an ID-assignment authority other than bio.tools.",         "$comment": "This field is not normally used for bio.tools toolIDs, but could be in the exceptional case that multiple such IDs were needed for a given entry.",         "type": "object",         "properties": {             "type": {                 "title": "Type of tool identifier",                 "description": "Type of tool identifier.",                 "type": "string",                 "enum": [                     "doi",                     "rrid",                     "cpe",                     "biotoolsCURIE"                 ],                 "examples": [                     "doi"                 ]             },             "value": {                 "title": "Value of tool identifier",                 "description": "Value of tool identifier.",                 "type": "string",                 "examples": [                     "10.1038/nmeth.1701"                 ],                 "anyOf": [                     {                         "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$"                     },                     {                         "pattern": "^((r|r|i|d|RRID)\\:[\\w\\D]+)$"                     },                     {                         "pattern": "^((c|p|e|CPE)\\:[\\w\\D]+)$"                     },                     {                         "pattern": "^((B|I|O|T|O|O|L|S|biotools)\\:[\\--\\.0-9A-Z_a-z]*)$"                     }                 ]             },             "version": {                 "title": "Tool version information (other IDs)",                 "description": "Version information (typically a version number) of the software applicable to this identifier.",                 "type": "string",                 "minLength": 1,                 "maxLength": 100,                 "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",                 "examples": [                     "2.0 - 2.7"                 ]             }         },         "required": [             "value"         ],         "additionalProperties": false     } }

Array item wildcard tool / otherID > array items [0]+ / Schema

diagram
schema details	Title   Tool unique identifiers Description   A unique identifier of the software, typically assigned by an ID-assignment authority other than bio.tools. Comment   This field is not normally used for bio.tools toolIDs, but could be in the exceptional case that multiple such IDs were needed for a given entry.
type	Object
properties	Name    Occurrence type    Optional value    Required version    Optional
source code	{     "title": "Tool unique identifiers",     "description": "A unique identifier of the software, typically assigned by an ID-assignment authority other than bio.tools.",     "$comment": "This field is not normally used for bio.tools toolIDs, but could be in the exceptional case that multiple such IDs were needed for a given entry.",     "type": "object",     "properties": {         "type": {             "title": "Type of tool identifier",             "description": "Type of tool identifier.",             "type": "string",             "enum": [                 "doi",                 "rrid",                 "cpe",                 "biotoolsCURIE"             ],             "examples": [                 "doi"             ]         },         "value": {             "title": "Value of tool identifier",             "description": "Value of tool identifier.",             "type": "string",             "examples": [                 "10.1038/nmeth.1701"             ],             "anyOf": [                 {                     "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$"                 },                 {                     "pattern": "^((r|r|i|d|RRID)\\:[\\w\\D]+)$"                 },                 {                     "pattern": "^((c|p|e|CPE)\\:[\\w\\D]+)$"                 },                 {                     "pattern": "^((B|I|O|T|O|O|L|S|biotools)\\:[\\--\\.0-9A-Z_a-z]*)$"                 }             ]         },         "version": {             "title": "Tool version information (other IDs)",             "description": "Version information (typically a version number) of the software applicable to this identifier.",             "type": "string",             "minLength": 1,             "maxLength": 100,             "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",             "examples": [                 "2.0 - 2.7"             ]         }     },     "required": [         "value"     ],     "additionalProperties": false }

Property tool / otherID > array items [0]+ / Schema / type

diagram
property details	Occurrence   Optional
schema details	Title   Type of tool identifier Description   Type of tool identifier.
type	String
enumerations	Type    Value string    doi string    rrid string    cpe string    biotoolsCURIE
examples	Type    Value string    doi
source code	"type": {     "title": "Type of tool identifier",     "description": "Type of tool identifier.",     "type": "string",     "enum": [         "doi",         "rrid",         "cpe",         "biotoolsCURIE"     ],     "examples": [         "doi"     ] }

Property tool / otherID > array items [0]+ / Schema / value

diagram
property details	Occurrence   Required
schema details	Title   Value of tool identifier Description   Value of tool identifier.
type	String
examples	Type    Value string    10.1038/nmeth.1701
any of	(0)   Schema (1)   Schema (2)   Schema (3)   Schema
source code	"value": {     "title": "Value of tool identifier",     "description": "Value of tool identifier.",     "type": "string",     "examples": [         "10.1038/nmeth.1701"     ],     "anyOf": [         {             "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$"         },         {             "pattern": "^((r|r|i|d|RRID)\\:[\\w\\D]+)$"         },         {             "pattern": "^((c|p|e|CPE)\\:[\\w\\D]+)$"         },         {             "pattern": "^((B|I|O|T|O|O|L|S|biotools)\\:[\\--\\.0-9A-Z_a-z]*)$"         }     ] }

Operator subschema tool / otherID > array items [0]+ / Schema / value > any of (0) / Schema

diagram
type	Any
string constraints	Pattern   ^(10\.[0-9]{4,9}/[\(-\)\--<>A-\[\]_a-z]+)$
array items	[0]+   Unconstrained
property wildcard	Definition   Unconstrained
source code	{     "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$" }

Operator subschema tool / otherID > array items [0]+ / Schema / value > any of (1) / Schema

diagram
type	Any
string constraints	Pattern   ^((r|r|i|d|RRID)\:[\w\D]+)$
array items	[0]+   Unconstrained
property wildcard	Definition   Unconstrained
source code	{     "pattern": "^((r|r|i|d|RRID)\\:[\\w\\D]+)$" }

Operator subschema tool / otherID > array items [0]+ / Schema / value > any of (2) / Schema

diagram
type	Any
string constraints	Pattern   ^((c|p|e|CPE)\:[\w\D]+)$
array items	[0]+   Unconstrained
property wildcard	Definition   Unconstrained
source code	{     "pattern": "^((c|p|e|CPE)\\:[\\w\\D]+)$" }

Operator subschema tool / otherID > array items [0]+ / Schema / value > any of (3) / Schema

diagram
type	Any
string constraints	Pattern   ^((B|I|O|T|O|O|L|S|biotools)\:[\--\.0-9A-Z_a-z]*)$
array items	[0]+   Unconstrained
property wildcard	Definition   Unconstrained
source code	{     "pattern": "^((B|I|O|T|O|O|L|S|biotools)\\:[\\--\\.0-9A-Z_a-z]*)$" }

Property tool / otherID > array items [0]+ / Schema / version

diagram
property details	Occurrence   Optional
schema details	Title   Tool version information (other IDs) Description   Version information (typically a version number) of the software applicable to this identifier.
type	String
string constraints	Min Length   1 Max Length   100 Pattern   ^([ \(-\)\+-\.0-;A-Z_a-z  ᠎ -   　]*)$
examples	Type    Value string    2.0 - 2.7
source code	"version": {     "title": "Tool version information (other IDs)",     "description": "Version information (typically a version number) of the software applicable to this identifier.",     "type": "string",     "minLength": 1,     "maxLength": 100,     "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",     "examples": [         "2.0 - 2.7"     ] }

Property tool / toolType

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"toolType": {     "type": "array",     "items": {         "title": "Tool type",         "description": "A type of application software: a discrete software entity can have more than one type.",         "$comment": "bio.tools includes all types of bioinformatics tools: application software with well-defined data processing functions (inputs, outputs and operations). When registering a tool, one or more tool types may be assigned, reflecting the different facets of the software being described.",         "type": "string",         "enum": [             "Bioinformatics portal",             "Command-line tool",             "Database portal",             "Desktop application",             "Library",             "Ontology",             "Plug-in",             "Script",             "SPARQL endpoint",             "Suite",             "Web application",             "Web API",             "Web service",             "Workbench",             "Workflow"         ]     } }

Array item wildcard tool / toolType > array items [0]+ / Schema

diagram
schema details	Title   Tool type Description   A type of application software: a discrete software entity can have more than one type. Comment   bio.tools includes all types of bioinformatics tools: application software with well-defined data processing functions (inputs, outputs and operations). When registering a tool, one or more tool types may be assigned, reflecting the different facets of the software being described.
type	String
enumerations	Type    Value string    Bioinformatics portal string    Command-line tool string    Database portal string    Desktop application string    Library string    Ontology string    Plug-in string    Script string    SPARQL endpoint string    Suite string    Web application string    Web API string    Web service string    Workbench string    Workflow
source code	{     "title": "Tool type",     "description": "A type of application software: a discrete software entity can have more than one type.",     "$comment": "bio.tools includes all types of bioinformatics tools: application software with well-defined data processing functions (inputs, outputs and operations). When registering a tool, one or more tool types may be assigned, reflecting the different facets of the software being described.",     "type": "string",     "enum": [         "Bioinformatics portal",         "Command-line tool",         "Database portal",         "Desktop application",         "Library",         "Ontology",         "Plug-in",         "Script",         "SPARQL endpoint",         "Suite",         "Web application",         "Web API",         "Web service",         "Workbench",         "Workflow"     ] }

Property tool / topic

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"topic": {     "type": "array",     "items": {         "title": "EDAM topics",         "description": "General scientific domain the software serves or other general category (EDAM Topic).",         "$comment": "An EDAM Topic concept URL and / or term are specified, e.g. 'Proteomics', http://edamontology.org/topic_0121.",         "type": "object",         "properties": {             "term": {                 "title": "EDAM topic term",                 "description": "An EDAM Topic term (preferred label or synonym).",                 "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",                 "type": "string",                 "examples": [                     "Proteomics"                 ]             },             "uri": {                 "title": "EDAM Topic URI",                 "description": "URL of an EDAM Topic concept.",                 "$comment": "The URL must be in the EDAM Topic namespace, i.e. http://edamontology.org/topic.",                 "type": "string",                 "pattern": "^(http\\://edamontology\\.org/topic_[0-9]{4,4})$",                 "examples": [                     "http://edamontology.org/topic_0121"                 ]             }         },         "additionalProperties": false     } }

Array item wildcard tool / topic > array items [0]+ / Schema

diagram
schema details	Title   EDAM topics Description   General scientific domain the software serves or other general category (EDAM Topic). Comment   An EDAM Topic concept URL and / or term are specified, e.g. 'Proteomics', http://edamontology.org/topic_0121.
type	Object
properties	Name    Occurrence term    Optional uri    Optional
source code	{     "title": "EDAM topics",     "description": "General scientific domain the software serves or other general category (EDAM Topic).",     "$comment": "An EDAM Topic concept URL and / or term are specified, e.g. 'Proteomics', http://edamontology.org/topic_0121.",     "type": "object",     "properties": {         "term": {             "title": "EDAM topic term",             "description": "An EDAM Topic term (preferred label or synonym).",             "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",             "type": "string",             "examples": [                 "Proteomics"             ]         },         "uri": {             "title": "EDAM Topic URI",             "description": "URL of an EDAM Topic concept.",             "$comment": "The URL must be in the EDAM Topic namespace, i.e. http://edamontology.org/topic.",             "type": "string",             "pattern": "^(http\\://edamontology\\.org/topic_[0-9]{4,4})$",             "examples": [                 "http://edamontology.org/topic_0121"             ]         }     },     "additionalProperties": false }

Property tool / topic > array items [0]+ / Schema / term

diagram
property details	Occurrence   Optional
schema details	Title   EDAM topic term Description   An EDAM Topic term (preferred label or synonym). Comment   The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.
type	String
examples	Type    Value string    Proteomics
source code	"term": {     "title": "EDAM topic term",     "description": "An EDAM Topic term (preferred label or synonym).",     "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",     "type": "string",     "examples": [         "Proteomics"     ] }

Property tool / topic > array items [0]+ / Schema / uri

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Topic URI Description   URL of an EDAM Topic concept. Comment   The URL must be in the EDAM Topic namespace, i.e. http://edamontology.org/topic.
type	String
string constraints	Pattern   ^(http\://edamontology\.org/topic_[0-9]{4,4})$
examples	Type    Value string    http://edamontology.org/topic_0121
source code	"uri": {     "title": "EDAM Topic URI",     "description": "URL of an EDAM Topic concept.",     "$comment": "The URL must be in the EDAM Topic namespace, i.e. http://edamontology.org/topic.",     "type": "string",     "pattern": "^(http\\://edamontology\\.org/topic_[0-9]{4,4})$",     "examples": [         "http://edamontology.org/topic_0121"     ] }

Property tool / operatingSystem

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"operatingSystem": {     "type": "array",     "items": {         "title": "Operating system",         "description": "The operating system supported by a downloadable software.",         "type": "string",         "enum": [             "Linux",             "Windows",             "Mac"         ]     } }

Array item wildcard tool / operatingSystem > array items [0]+ / Schema

diagram
schema details	Title   Operating system Description   The operating system supported by a downloadable software.
type	String
enumerations	Type    Value string    Linux string    Windows string    Mac
source code	{     "title": "Operating system",     "description": "The operating system supported by a downloadable software.",     "type": "string",     "enum": [         "Linux",         "Windows",         "Mac"     ] }

Property tool / language

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"language": {     "type": "array",     "items": {         "title": "Programming language",         "description": "Name of programming language, e.g. used for the software source code or compatible with an API.",         "type": "string",         "enum": [             "ActionScript",             "Ada",             "AppleScript",             "Assembly language",             "AWK",             "Bash",             "C",             "C#",             "C++",             "COBOL",             "ColdFusion",             "CWL",             "D",             "Delphi",             "Dylan",             "Eiffel",             "Forth",             "Fortran",             "Groovy",             "Haskell",             "Icarus",             "Java",             "JavaScript",             "Julia",             "JSP",             "LabVIEW",             "Lisp",             "Lua",             "Maple",             "Mathematica",             "MATLAB",             "MLXTRAN",             "NMTRAN",             "OCaml",             "Pascal",             "Perl",             "PHP",             "Prolog",             "PyMOL",             "Python",             "R",             "Racket",             "REXX",             "Ruby",             "SAS",             "Scala",             "Scheme",             "Shell",             "Smalltalk",             "SQL",             "Turing",             "Verilog",             "VHDL",             "Visual Basic",             "XAML",             "Other"         ]     } }

Array item wildcard tool / language > array items [0]+ / Schema

diagram
schema details	Title   Programming language Description   Name of programming language, e.g. used for the software source code or compatible with an API.
type	String
enumerations	Type    Value string    ActionScript string    Ada string    AppleScript string    Assembly language string    AWK string    Bash string    C string    C# string    C++ string    COBOL string    ColdFusion string    CWL string    D string    Delphi string    Dylan string    Eiffel string    Forth string    Fortran string    Groovy string    Haskell string    Icarus string    Java string    JavaScript string    Julia string    JSP string    LabVIEW string    Lisp string    Lua string    Maple string    Mathematica string    MATLAB string    MLXTRAN string    NMTRAN string    OCaml string    Pascal string    Perl string    PHP string    Prolog string    PyMOL string    Python string    R string    Racket string    REXX string    Ruby string    SAS string    Scala string    Scheme string    Shell string    Smalltalk string    SQL string    Turing string    Verilog string    VHDL string    Visual Basic string    XAML string    Other
source code	{     "title": "Programming language",     "description": "Name of programming language, e.g. used for the software source code or compatible with an API.",     "type": "string",     "enum": [         "ActionScript",         "Ada",         "AppleScript",         "Assembly language",         "AWK",         "Bash",         "C",         "C#",         "C++",         "COBOL",         "ColdFusion",         "CWL",         "D",         "Delphi",         "Dylan",         "Eiffel",         "Forth",         "Fortran",         "Groovy",         "Haskell",         "Icarus",         "Java",         "JavaScript",         "Julia",         "JSP",         "LabVIEW",         "Lisp",         "Lua",         "Maple",         "Mathematica",         "MATLAB",         "MLXTRAN",         "NMTRAN",         "OCaml",         "Pascal",         "Perl",         "PHP",         "Prolog",         "PyMOL",         "Python",         "R",         "Racket",         "REXX",         "Ruby",         "SAS",         "Scala",         "Scheme",         "Shell",         "Smalltalk",         "SQL",         "Turing",         "Verilog",         "VHDL",         "Visual Basic",         "XAML",         "Other"     ] }

Property tool / license

diagram
property details	Occurrence   Optional
schema details	Title   Software or data usage license Description   Software or data usage license. Comment   Identifier from the SPDX license list (https://spdx.org/licenses/). In future, based on the supplied license, a label e.g. 'Open-source' may be applied to the entry in bio.tools. Use 'Proprietary' where the software must be obtained from the provider (e.g. for money), and is then owned. Use 'Freeware' for proprietary software that is available at no monetary cost. Use 'Not licensed' for software which is not licensed and is not proprietary, and 'Other' for software under license not currently supported by biotoolsSchema. Note that for online services, the license attribute refers to the license of the underlying software or data, or a part of those.
type	String
enumerations	Type    Value string    0BSD string    AAL string    ADSL string    AFL-1.1 string    AFL-1.2 string    AFL-2.0 string    AFL-2.1 string    AFL-3.0 string    AGPL-1.0 string    AGPL-3.0 string    AMDPLPA string    AML string    AMPAS string    ANTLR-PD string    APAFML string    APL-1.0 string    APSL-1.0 string    APSL-1.1 string    APSL-1.2 string    APSL-2.0 string    Abstyles string    Adobe-2006 string    Adobe-Glyph string    Afmparse string    Aladdin string    Apache-1.0 string    Apache-1.1 string    Apache-2.0 string    Artistic-1.0 string    Artistic-1.0-Perl string    Artistic-1.0-cl8 string    Artistic-2.0 string    BSD-2-Clause string    BSD-2-Clause-FreeBSD string    BSD-2-Clause-NetBSD string    BSD-3-Clause string    BSD-3-Clause-Attribution string    BSD-3-Clause-Clear string    BSD-3-Clause-LBNL string    BSD-3-Clause-No-Nuclear-License string    BSD-3-Clause-No-Nuclear-License-2014 string    BSD-3-Clause-No-Nuclear-Warranty string    BSD-4-Clause string    BSD-4-Clause-UC string    BSD-Protection string    BSD-Source-Code string    BSL-1.0 string    Bahyph string    Barr string    Beerware string    BitTorrent-1.0 string    BitTorrent-1.1 string    Borceux string    CATOSL-1.1 string    CC-BY-1.0 string    CC-BY-2.0 string    CC-BY-2.5 string    CC-BY-3.0 string    CC-BY-4.0 string    CC-BY-NC-1.0 string    CC-BY-NC-2.0 string    CC-BY-NC-2.5 string    CC-BY-NC-3.0 string    CC-BY-NC-4.0 string    CC-BY-NC-ND-1.0 string    CC-BY-NC-ND-2.0 string    CC-BY-NC-ND-2.5 string    CC-BY-NC-ND-3.0 string    CC-BY-NC-ND-4.0 string    CC-BY-NC-SA-1.0 string    CC-BY-NC-SA-2.0 string    CC-BY-NC-SA-2.5 string    CC-BY-NC-SA-3.0 string    CC-BY-NC-SA-4.0 string    CC-BY-ND-1.0 string    CC-BY-ND-2.0 string    CC-BY-ND-2.5 string    CC-BY-ND-3.0 string    CC-BY-ND-4.0 string    CC-BY-SA-1.0 string    CC-BY-SA-2.0 string    CC-BY-SA-2.5 string    CC-BY-SA-3.0 string    CC-BY-SA-4.0 string    CC0-1.0 string    CDDL-1.0 string    CDDL-1.1 string    CECILL-1.0 string    CECILL-1.1 string    CECILL-2.0 string    CECILL-2.1 string    CECILL-B string    CECILL-C string    CNRI-Jython string    CNRI-Python string    CNRI-Python-GPL-Compatible string    CPAL-1.0 string    CPL-1.0 string    CPOL-1.02 string    CUA-OPL-1.0 string    Caldera string    ClArtistic string    Condor-1.1 string    Crossword string    CrystalStacker string    Cube string    D-FSL-1.0 string    DOC string    DSDP string    Dotseqn string    ECL-1.0 string    ECL-2.0 string    EFL-1.0 string    EFL-2.0 string    EPL-1.0 string    EUDatagrid string    EUPL-1.0 string    EUPL-1.1 string    Entessa string    ErlPL-1.1 string    Eurosym string    FSFAP string    FSFUL string    FSFULLR string    FTL string    Fair string    Frameworx-1.0 string    FreeImage string    GFDL-1.1 string    GFDL-1.2 string    GFDL-1.3 string    GL2PS string    GPL-1.0 string    GPL-2.0 string    GPL-3.0 string    Giftware string    Glide string    Glulxe string    HPND string    HaskellReport string    IBM-pibs string    ICU string    IJG string    IPA string    IPL-1.0 string    ISC string    ImageMagick string    Imlib2 string    Info-ZIP string    Intel string    Intel-ACPI string    Interbase-1.0 string    JSON string    JasPer-2.0 string    LAL-1.2 string    LAL-1.3 string    LGPL-2.0 string    LGPL-2.1 string    LGPL-3.0 string    LGPLLR string    LPL-1.0 string    LPL-1.02 string    LPPL-1.0 string    LPPL-1.1 string    LPPL-1.2 string    LPPL-1.3a string    LPPL-1.3c string    Latex2e string    Leptonica string    LiLiQ-P-1.1 string    LiLiQ-R-1.1 string    LiLiQ-Rplus-1.1 string    Libpng string    MIT string    MIT-CMU string    MIT-advertising string    MIT-enna string    MIT-feh string    MITNFA string    MPL-1.0 string    MPL-1.1 string    MPL-2.0 string    MPL-2.0-no-copyleft-exception string    MS-PL string    MS-RL string    MTLL string    MakeIndex string    MirOS string    Motosoto string    Multics string    Mup string    NASA-1.3 string    NBPL-1.0 string    NCSA string    NGPL string    NLOD-1.0 string    NLPL string    NOSL string    NPL-1.0 string    NPL-1.1 string    NPOSL-3.0 string    NRL string    NTP string    Naumen string    NetCDF string    Newsletr string    Nokia string    Noweb string    Nunit string    OCCT-PL string    OCLC-2.0 string    ODbL-1.0 string    OFL-1.0 string    OFL-1.1 string    OGTSL string    OLDAP-1.1 string    OLDAP-1.2 string    OLDAP-1.3 string    OLDAP-1.4 string    OLDAP-2.0 string    OLDAP-2.0.1 string    OLDAP-2.1 string    OLDAP-2.2 string    OLDAP-2.2.1 string    OLDAP-2.2.2 string    OLDAP-2.3 string    OLDAP-2.4 string    OLDAP-2.5 string    OLDAP-2.6 string    OLDAP-2.7 string    OLDAP-2.8 string    OML string    OPL-1.0 string    OSET-PL-2.1 string    OSL-1.0 string    OSL-1.1 string    OSL-2.0 string    OSL-2.1 string    OSL-3.0 string    OpenSSL string    PDDL-1.0 string    PHP-3.0 string    PHP-3.01 string    Plexus string    PostgreSQL string    Python-2.0 string    QPL-1.0 string    Qhull string    RHeCos-1.1 string    RPL-1.1 string    RPL-1.5 string    RPSL-1.0 string    RSA-MD string    RSCPL string    Rdisc string    Ruby string    SAX-PD string    SCEA string    SGI-B-1.0 string    SGI-B-1.1 string    SGI-B-2.0 string    SISSL string    SISSL-1.2 string    SMLNJ string    SMPPL string    SNIA string    SPL-1.0 string    SWL string    Saxpath string    Sendmail string    SimPL-2.0 string    Sleepycat string    Spencer-86 string    Spencer-94 string    Spencer-99 string    SugarCRM-1.1.3 string    TCL string    TMate string    TORQUE-1.1 string    TOSL string    UPL-1.0 string    Unicode-TOU string    Unlicense string    VOSTROM string    VSL-1.0 string    Vim string    W3C string    W3C-19980720 string    WTFPL string    Watcom-1.0 string    Wsuipa string    X11 string    XFree86-1.1 string    XSkat string    Xerox string    Xnet string    YPL-1.0 string    YPL-1.1 string    ZPL-1.1 string    ZPL-2.0 string    ZPL-2.1 string    Zed string    Zend-2.0 string    Zimbra-1.3 string    Zimbra-1.4 string    Zlib string    bzip2-1.0.5 string    bzip2-1.0.6 string    curl string    diffmark string    dvipdfm string    eGenix string    gSOAP-1.3b string    gnuplot string    iMatix string    libtiff string    mpich2 string    psfrag string    psutils string    xinetd string    xpp string    zlib-acknowledgement string    Proprietary string    Other string    Not licensed string    Freeware
source code	"license": {     "title": "Software or data usage license",     "description": "Software or data usage license.",     "$comment": "Identifier from the SPDX license list (https://spdx.org/licenses/).  In future, based on the supplied license, a label e.g. 'Open-source' may be applied to the entry in bio.tools.  Use 'Proprietary' where the software must be obtained from the provider (e.g. for money), and is then owned.  Use 'Freeware' for proprietary software that is available at no monetary cost. Use 'Not licensed' for software which is not licensed and is not proprietary, and 'Other' for software under license not currently supported by biotoolsSchema. Note that for online services, the license attribute refers to the license of the underlying software or data, or a part of those.",     "type": "string",     "enum": [         "0BSD",         "AAL",         "ADSL",         "AFL-1.1",         "AFL-1.2",         "AFL-2.0",         "AFL-2.1",         "AFL-3.0",         "AGPL-1.0",         "AGPL-3.0",         "AMDPLPA",         "AML",         "AMPAS",         "ANTLR-PD",         "APAFML",         "APL-1.0",         "APSL-1.0",         "APSL-1.1",         "APSL-1.2",         "APSL-2.0",         "Abstyles",         "Adobe-2006",         "Adobe-Glyph",         "Afmparse",         "Aladdin",         "Apache-1.0",         "Apache-1.1",         "Apache-2.0",         "Artistic-1.0",         "Artistic-1.0-Perl",         "Artistic-1.0-cl8",         "Artistic-2.0",         "BSD-2-Clause",         "BSD-2-Clause-FreeBSD",         "BSD-2-Clause-NetBSD",         "BSD-3-Clause",         "BSD-3-Clause-Attribution",         "BSD-3-Clause-Clear",         "BSD-3-Clause-LBNL",         "BSD-3-Clause-No-Nuclear-License",         "BSD-3-Clause-No-Nuclear-License-2014",         "BSD-3-Clause-No-Nuclear-Warranty",         "BSD-4-Clause",         "BSD-4-Clause-UC",         "BSD-Protection",         "BSD-Source-Code",         "BSL-1.0",         "Bahyph",         "Barr",         "Beerware",         "BitTorrent-1.0",         "BitTorrent-1.1",         "Borceux",         "CATOSL-1.1",         "CC-BY-1.0",         "CC-BY-2.0",         "CC-BY-2.5",         "CC-BY-3.0",         "CC-BY-4.0",         "CC-BY-NC-1.0",         "CC-BY-NC-2.0",         "CC-BY-NC-2.5",         "CC-BY-NC-3.0",         "CC-BY-NC-4.0",         "CC-BY-NC-ND-1.0",         "CC-BY-NC-ND-2.0",         "CC-BY-NC-ND-2.5",         "CC-BY-NC-ND-3.0",         "CC-BY-NC-ND-4.0",         "CC-BY-NC-SA-1.0",         "CC-BY-NC-SA-2.0",         "CC-BY-NC-SA-2.5",         "CC-BY-NC-SA-3.0",         "CC-BY-NC-SA-4.0",         "CC-BY-ND-1.0",         "CC-BY-ND-2.0",         "CC-BY-ND-2.5",         "CC-BY-ND-3.0",         "CC-BY-ND-4.0",         "CC-BY-SA-1.0",         "CC-BY-SA-2.0",         "CC-BY-SA-2.5",         "CC-BY-SA-3.0",         "CC-BY-SA-4.0",         "CC0-1.0",         "CDDL-1.0",         "CDDL-1.1",         "CECILL-1.0",         "CECILL-1.1",         "CECILL-2.0",         "CECILL-2.1",         "CECILL-B",         "CECILL-C",         "CNRI-Jython",         "CNRI-Python",         "CNRI-Python-GPL-Compatible",         "CPAL-1.0",         "CPL-1.0",         "CPOL-1.02",         "CUA-OPL-1.0",         "Caldera",         "ClArtistic",         "Condor-1.1",         "Crossword",         "CrystalStacker",         "Cube",         "D-FSL-1.0",         "DOC",         "DSDP",         "Dotseqn",         "ECL-1.0",         "ECL-2.0",         "EFL-1.0",         "EFL-2.0",         "EPL-1.0",         "EUDatagrid",         "EUPL-1.0",         "EUPL-1.1",         "Entessa",         "ErlPL-1.1",         "Eurosym",         "FSFAP",         "FSFUL",         "FSFULLR",         "FTL",         "Fair",         "Frameworx-1.0",         "FreeImage",         "GFDL-1.1",         "GFDL-1.2",         "GFDL-1.3",         "GL2PS",         "GPL-1.0",         "GPL-2.0",         "GPL-3.0",         "Giftware",         "Glide",         "Glulxe",         "HPND",         "HaskellReport",         "IBM-pibs",         "ICU",         "IJG",         "IPA",         "IPL-1.0",         "ISC",         "ImageMagick",         "Imlib2",         "Info-ZIP",         "Intel",         "Intel-ACPI",         "Interbase-1.0",         "JSON",         "JasPer-2.0",         "LAL-1.2",         "LAL-1.3",         "LGPL-2.0",         "LGPL-2.1",         "LGPL-3.0",         "LGPLLR",         "LPL-1.0",         "LPL-1.02",         "LPPL-1.0",         "LPPL-1.1",         "LPPL-1.2",         "LPPL-1.3a",         "LPPL-1.3c",         "Latex2e",         "Leptonica",         "LiLiQ-P-1.1",         "LiLiQ-R-1.1",         "LiLiQ-Rplus-1.1",         "Libpng",         "MIT",         "MIT-CMU",         "MIT-advertising",         "MIT-enna",         "MIT-feh",         "MITNFA",         "MPL-1.0",         "MPL-1.1",         "MPL-2.0",         "MPL-2.0-no-copyleft-exception",         "MS-PL",         "MS-RL",         "MTLL",         "MakeIndex",         "MirOS",         "Motosoto",         "Multics",         "Mup",         "NASA-1.3",         "NBPL-1.0",         "NCSA",         "NGPL",         "NLOD-1.0",         "NLPL",         "NOSL",         "NPL-1.0",         "NPL-1.1",         "NPOSL-3.0",         "NRL",         "NTP",         "Naumen",         "NetCDF",         "Newsletr",         "Nokia",         "Noweb",         "Nunit",         "OCCT-PL",         "OCLC-2.0",         "ODbL-1.0",         "OFL-1.0",         "OFL-1.1",         "OGTSL",         "OLDAP-1.1",         "OLDAP-1.2",         "OLDAP-1.3",         "OLDAP-1.4",         "OLDAP-2.0",         "OLDAP-2.0.1",         "OLDAP-2.1",         "OLDAP-2.2",         "OLDAP-2.2.1",         "OLDAP-2.2.2",         "OLDAP-2.3",         "OLDAP-2.4",         "OLDAP-2.5",         "OLDAP-2.6",         "OLDAP-2.7",         "OLDAP-2.8",         "OML",         "OPL-1.0",         "OSET-PL-2.1",         "OSL-1.0",         "OSL-1.1",         "OSL-2.0",         "OSL-2.1",         "OSL-3.0",         "OpenSSL",         "PDDL-1.0",         "PHP-3.0",         "PHP-3.01",         "Plexus",         "PostgreSQL",         "Python-2.0",         "QPL-1.0",         "Qhull",         "RHeCos-1.1",         "RPL-1.1",         "RPL-1.5",         "RPSL-1.0",         "RSA-MD",         "RSCPL",         "Rdisc",         "Ruby",         "SAX-PD",         "SCEA",         "SGI-B-1.0",         "SGI-B-1.1",         "SGI-B-2.0",         "SISSL",         "SISSL-1.2",         "SMLNJ",         "SMPPL",         "SNIA",         "SPL-1.0",         "SWL",         "Saxpath",         "Sendmail",         "SimPL-2.0",         "Sleepycat",         "Spencer-86",         "Spencer-94",         "Spencer-99",         "SugarCRM-1.1.3",         "TCL",         "TMate",         "TORQUE-1.1",         "TOSL",         "UPL-1.0",         "Unicode-TOU",         "Unlicense",         "VOSTROM",         "VSL-1.0",         "Vim",         "W3C",         "W3C-19980720",         "WTFPL",         "Watcom-1.0",         "Wsuipa",         "X11",         "XFree86-1.1",         "XSkat",         "Xerox",         "Xnet",         "YPL-1.0",         "YPL-1.1",         "ZPL-1.1",         "ZPL-2.0",         "ZPL-2.1",         "Zed",         "Zend-2.0",         "Zimbra-1.3",         "Zimbra-1.4",         "Zlib",         "bzip2-1.0.5",         "bzip2-1.0.6",         "curl",         "diffmark",         "dvipdfm",         "eGenix",         "gSOAP-1.3b",         "gnuplot",         "iMatix",         "libtiff",         "mpich2",         "psfrag",         "psutils",         "xinetd",         "xpp",         "zlib-acknowledgement",         "Proprietary",         "Other",         "Not licensed",         "Freeware"     ] }

Property tool / collectionID

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"collectionID": {     "type": "array",     "items": {         "title": "Tool collection ID",         "description": "A tag which assigns the software to a collection in bio.tools.",         "type": "string",         "minLength": 1,         "maxLength": 100,         "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",         "examples": [             "emboss"         ]     } }

Array item wildcard tool / collectionID > array items [0]+ / Schema

diagram
schema details	Title   Tool collection ID Description   A tag which assigns the software to a collection in bio.tools.
type	String
string constraints	Min Length   1 Max Length   100 Pattern   ^([ \(-\)\+-\.0-;A-Z_a-z  ᠎ -   　]*)$
examples	Type    Value string    emboss
source code	{     "title": "Tool collection ID",     "description": "A tag which assigns the software to a collection in bio.tools.",     "type": "string",     "minLength": 1,     "maxLength": 100,     "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",     "examples": [         "emboss"     ] }

Property tool / maturity

diagram
property details	Occurrence   Optional
schema details	Title   Sofware product maturity Description   Development stage of the software product.
type	String
enumerations	Type    Value string    Emerging string    Mature string    Legacy
source code	"maturity": {     "title": "Sofware product maturity",     "description": "Development stage of the software product.",     "type": "string",     "enum": [         "Emerging",         "Mature",         "Legacy"     ] }

Property tool / cost

diagram
property details	Occurrence   Optional
schema details	Title   Cost Description   Monetary cost of acquiring the software.
type	String
enumerations	Type    Value string    Free of charge string    Free of charge (with restrictions) string    Commercial
source code	"cost": {     "title": "Cost",     "description": "Monetary cost of acquiring the software.",     "type": "string",     "enum": [         "Free of charge",         "Free of charge (with restrictions)",         "Commercial"     ] }

Property tool / accessibility

diagram
property details	Occurrence   Optional
schema details	Title   Accessibility Description   Whether an online service is freely available for use.
type	String
enumerations	Type    Value string    Open access string    Restricted access
source code	"accessibility": {     "title": "Accessibility",     "description": "Whether an online service is freely available for use.",     "type": "string",     "enum": [         "Open access",         "Restricted access"     ] }

Property tool / elixirPlatform

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"elixirPlatform": {     "type": "array",     "items": {         "title": "ELIXIR platform",         "description": "ELIXIR platform credited for developing or providing the software.",         "type": "string",         "enum": [             "Data",             "Tools",             "Compute",             "Interoperability",             "Training"         ]     } }

Array item wildcard tool / elixirPlatform > array items [0]+ / Schema

diagram
schema details	Title   ELIXIR platform Description   ELIXIR platform credited for developing or providing the software.
type	String
enumerations	Type    Value string    Data string    Tools string    Compute string    Interoperability string    Training
source code	{     "title": "ELIXIR platform",     "description": "ELIXIR platform credited for developing or providing the software.",     "type": "string",     "enum": [         "Data",         "Tools",         "Compute",         "Interoperability",         "Training"     ] }

Property tool / elixirNode

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"elixirNode": {     "type": "array",     "items": {         "title": "ELIXIR node",         "description": "ELIXIR node credited for developing or providing the software - the software is in Node Service Delivery Plan.",         "type": "string",         "enum": [             "Belgium",             "Czech Republic",             "Denmark",             "EMBL",             "Estonia",             "Finland",             "France",             "Germany",             "Greece",             "Hungary",             "Ireland",             "Israel",             "Italy",             "Luxembourg",             "Netherlands",             "Norway",             "Portugal",             "Slovenia",             "Spain",             "Sweden",             "Switzerland",             "UK"         ]     } }

Array item wildcard tool / elixirNode > array items [0]+ / Schema

diagram
schema details	Title   ELIXIR node Description   ELIXIR node credited for developing or providing the software - the software is in Node Service Delivery Plan.
type	String
enumerations	Type    Value string    Belgium string    Czech Republic string    Denmark string    EMBL string    Estonia string    Finland string    France string    Germany string    Greece string    Hungary string    Ireland string    Israel string    Italy string    Luxembourg string    Netherlands string    Norway string    Portugal string    Slovenia string    Spain string    Sweden string    Switzerland string    UK
source code	{     "title": "ELIXIR node",     "description": "ELIXIR node credited for developing or providing the software - the software is in Node Service Delivery Plan.",     "type": "string",     "enum": [         "Belgium",         "Czech Republic",         "Denmark",         "EMBL",         "Estonia",         "Finland",         "France",         "Germany",         "Greece",         "Hungary",         "Ireland",         "Israel",         "Italy",         "Luxembourg",         "Netherlands",         "Norway",         "Portugal",         "Slovenia",         "Spain",         "Sweden",         "Switzerland",         "UK"     ] }

Property tool / function

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"function": {     "type": "array",     "items": {         "title": "Tool functions",         "description": "Details of a function (i.e. mode of operation) the software provides, expressed in concepts from the EDAM ontology.",         "type": "object",         "properties": {             "operation": {                 "type": "array",                 "minItems": 1,                 "items": {                     "title": "EDAM Operations",                     "description": "The basic operation(s) performed by this software function (EDAM Operation).",                     "$comment": "An EDAM Operation concept URL and / or term are specified, e.g. 'Multiple sequence alignment', http://edamontology.org/operation_0492.",                     "type": "object",                     "properties": {                         "term": {                             "title": "EDAM Operation term",                             "description": "An EDAM Operation term (preferred label or synonym).",                             "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",                             "type": "string",                             "examples": [                                 "Multiple sequence alignment"                             ]                         },                         "uri": {                             "title": "EDAM Operation URI",                             "description": "URL of an EDAM Operation concept. (NOTE: The URL must be in the EDAM Operation namespace, i.e. http://edamontology.org/operation.)",                             "type": "string",                             "pattern": "^(http\\://edamontology\\.org/operation_[0-9]{4,4})$",                             "examples": [                                 "http://edamontology.org/operation_0492"                             ]                         }                     },                     "additionalProperties": false                 }             },             "input": {                 "type": "array",                 "items": {                     "title": "Tool input",                     "description": "Details of primary input data.",                     "type": "object",                     "properties": {                         "data": {                             "$ref": "#/definitions/EDAMdata",                             "title": "Input data (EDAM Data)",                             "description": "Type of primary input data, if any (EDAM data).",                             "$comment": "An EDAM Data concept URL and / or term are specified, e.g. 'Protein sequences', http://edamontology.org/data_2976."                         },                         "format": {                             "title": "EDAM Format concept(s)",                             "description": "EDAM Format concept(s).",                             "type": "array",                             "items": {                                 "$ref": "#/definitions/EDAMformat",                                 "title": "Input format(s) (EDAM Format)",                                 "description": "Allowed format(s) of the input data (EDAM Format). "                             }                         }                     },                     "required": [                         "data"                     ],                     "additionalProperties": false                 }             },             "output": {                 "type": "array",                 "items": {                     "title": "Tool output",                     "description": "Details of primary output data.",                     "type": "object",                     "properties": {                         "data": {                             "$ref": "#/definitions/EDAMdata",                             "title": "Output data (EDAM Data)",                             "description": "Type of primary output data, if any (EDAM Data).",                             "$comment": "An EDAM Data concept URL and (optionally) term are specified, e.g. 'Sequence alignment', http://edamontology.org/data_0863."                         },                         "format": {                             "title": "EDAM Format concept(s)",                             "description": "EDAM Foramt concept(s)",                             "type": "array",                             "items": {                                 "$ref": "#/definitions/EDAMformat",                                 "title": "Output format(s) (EDAM Format)",                                 "description": "Allowed format(s) of the output data (EDAM Format)."                             }                         }                     },                     "required": [                         "data"                     ],                     "additionalProperties": false                 }             },             "note": {                 "title": "Function note",                 "description": "Concise comment about this function, if not apparent from the software description and EDAM annotations.",                 "type": "string",                 "minLength": 10,                 "maxLength": 1000,                 "examples": [                     "Concise comment about this function, if not apparent from the software description and EDAM annotations."                 ]             },             "cmd": {                 "title": "Command-line snippet",                 "description": "Relevant command, command-line fragment or option for executing this function / running the tool in this mode.",                 "type": "string",                 "minLength": 1,                 "maxLength": 1000,                 "examples": [                     "-s best"                 ]             }         },         "required": [             "operation"         ],         "additionalProperties": false     } }

Array item wildcard tool / function > array items [0]+ / Schema

diagram
schema details	Title   Tool functions Description   Details of a function (i.e. mode of operation) the software provides, expressed in concepts from the EDAM ontology.
type	Object
properties	Name    Occurrence operation    Required input    Optional output    Optional note    Optional cmd    Optional
source code	{     "title": "Tool functions",     "description": "Details of a function (i.e. mode of operation) the software provides, expressed in concepts from the EDAM ontology.",     "type": "object",     "properties": {         "operation": {             "type": "array",             "minItems": 1,             "items": {                 "title": "EDAM Operations",                 "description": "The basic operation(s) performed by this software function (EDAM Operation).",                 "$comment": "An EDAM Operation concept URL and / or term are specified, e.g. 'Multiple sequence alignment', http://edamontology.org/operation_0492.",                 "type": "object",                 "properties": {                     "term": {                         "title": "EDAM Operation term",                         "description": "An EDAM Operation term (preferred label or synonym).",                         "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",                         "type": "string",                         "examples": [                             "Multiple sequence alignment"                         ]                     },                     "uri": {                         "title": "EDAM Operation URI",                         "description": "URL of an EDAM Operation concept. (NOTE: The URL must be in the EDAM Operation namespace, i.e. http://edamontology.org/operation.)",                         "type": "string",                         "pattern": "^(http\\://edamontology\\.org/operation_[0-9]{4,4})$",                         "examples": [                             "http://edamontology.org/operation_0492"                         ]                     }                 },                 "additionalProperties": false             }         },         "input": {             "type": "array",             "items": {                 "title": "Tool input",                 "description": "Details of primary input data.",                 "type": "object",                 "properties": {                     "data": {                         "$ref": "#/definitions/EDAMdata",                         "title": "Input data (EDAM Data)",                         "description": "Type of primary input data, if any (EDAM data).",                         "$comment": "An EDAM Data concept URL and / or term are specified, e.g. 'Protein sequences', http://edamontology.org/data_2976."                     },                     "format": {                         "title": "EDAM Format concept(s)",                         "description": "EDAM Format concept(s).",                         "type": "array",                         "items": {                             "$ref": "#/definitions/EDAMformat",                             "title": "Input format(s) (EDAM Format)",                             "description": "Allowed format(s) of the input data (EDAM Format). "                         }                     }                 },                 "required": [                     "data"                 ],                 "additionalProperties": false             }         },         "output": {             "type": "array",             "items": {                 "title": "Tool output",                 "description": "Details of primary output data.",                 "type": "object",                 "properties": {                     "data": {                         "$ref": "#/definitions/EDAMdata",                         "title": "Output data (EDAM Data)",                         "description": "Type of primary output data, if any (EDAM Data).",                         "$comment": "An EDAM Data concept URL and (optionally) term are specified, e.g. 'Sequence alignment', http://edamontology.org/data_0863."                     },                     "format": {                         "title": "EDAM Format concept(s)",                         "description": "EDAM Foramt concept(s)",                         "type": "array",                         "items": {                             "$ref": "#/definitions/EDAMformat",                             "title": "Output format(s) (EDAM Format)",                             "description": "Allowed format(s) of the output data (EDAM Format)."                         }                     }                 },                 "required": [                     "data"                 ],                 "additionalProperties": false             }         },         "note": {             "title": "Function note",             "description": "Concise comment about this function, if not apparent from the software description and EDAM annotations.",             "type": "string",             "minLength": 10,             "maxLength": 1000,             "examples": [                 "Concise comment about this function, if not apparent from the software description and EDAM annotations."             ]         },         "cmd": {             "title": "Command-line snippet",             "description": "Relevant command, command-line fragment or option for executing this function / running the tool in this mode.",             "type": "string",             "minLength": 1,             "maxLength": 1000,             "examples": [                 "-s best"             ]         }     },     "required": [         "operation"     ],     "additionalProperties": false }

Property tool / function > array items [0]+ / Schema / operation

diagram
property details	Occurrence   Required
type	Array
array constraints	Min Items   1
array items	[0]+   Schema
source code	"operation": {     "type": "array",     "minItems": 1,     "items": {         "title": "EDAM Operations",         "description": "The basic operation(s) performed by this software function (EDAM Operation).",         "$comment": "An EDAM Operation concept URL and / or term are specified, e.g. 'Multiple sequence alignment', http://edamontology.org/operation_0492.",         "type": "object",         "properties": {             "term": {                 "title": "EDAM Operation term",                 "description": "An EDAM Operation term (preferred label or synonym).",                 "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",                 "type": "string",                 "examples": [                     "Multiple sequence alignment"                 ]             },             "uri": {                 "title": "EDAM Operation URI",                 "description": "URL of an EDAM Operation concept. (NOTE: The URL must be in the EDAM Operation namespace, i.e. http://edamontology.org/operation.)",                 "type": "string",                 "pattern": "^(http\\://edamontology\\.org/operation_[0-9]{4,4})$",                 "examples": [                     "http://edamontology.org/operation_0492"                 ]             }         },         "additionalProperties": false     } }

Array item wildcard tool / function > array items [0]+ / Schema / operation > array items [0]+ / Schema

diagram
schema details	Title   EDAM Operations Description   The basic operation(s) performed by this software function (EDAM Operation). Comment   An EDAM Operation concept URL and / or term are specified, e.g. 'Multiple sequence alignment', http://edamontology.org/operation_0492.
type	Object
properties	Name    Occurrence term    Optional uri    Optional
source code	{     "title": "EDAM Operations",     "description": "The basic operation(s) performed by this software function (EDAM Operation).",     "$comment": "An EDAM Operation concept URL and / or term are specified, e.g. 'Multiple sequence alignment', http://edamontology.org/operation_0492.",     "type": "object",     "properties": {         "term": {             "title": "EDAM Operation term",             "description": "An EDAM Operation term (preferred label or synonym).",             "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",             "type": "string",             "examples": [                 "Multiple sequence alignment"             ]         },         "uri": {             "title": "EDAM Operation URI",             "description": "URL of an EDAM Operation concept. (NOTE: The URL must be in the EDAM Operation namespace, i.e. http://edamontology.org/operation.)",             "type": "string",             "pattern": "^(http\\://edamontology\\.org/operation_[0-9]{4,4})$",             "examples": [                 "http://edamontology.org/operation_0492"             ]         }     },     "additionalProperties": false }

Property tool / function > array items [0]+ / Schema / operation > array items [0]+ / Schema / term

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Operation term Description   An EDAM Operation term (preferred label or synonym). Comment   The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.
type	String
examples	Type    Value string    Multiple sequence alignment
source code	"term": {     "title": "EDAM Operation term",     "description": "An EDAM Operation term (preferred label or synonym).",     "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",     "type": "string",     "examples": [         "Multiple sequence alignment"     ] }

Property tool / function > array items [0]+ / Schema / operation > array items [0]+ / Schema / uri

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Operation URI Description   URL of an EDAM Operation concept. (NOTE: The URL must be in the EDAM Operation namespace, i.e. http://edamontology.org/operation.)
type	String
string constraints	Pattern   ^(http\://edamontology\.org/operation_[0-9]{4,4})$
examples	Type    Value string    http://edamontology.org/operation_0492
source code	"uri": {     "title": "EDAM Operation URI",     "description": "URL of an EDAM Operation concept. (NOTE: The URL must be in the EDAM Operation namespace, i.e. http://edamontology.org/operation.)",     "type": "string",     "pattern": "^(http\\://edamontology\\.org/operation_[0-9]{4,4})$",     "examples": [         "http://edamontology.org/operation_0492"     ] }

Property tool / function > array items [0]+ / Schema / input

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"input": {     "type": "array",     "items": {         "title": "Tool input",         "description": "Details of primary input data.",         "type": "object",         "properties": {             "data": {                 "$ref": "#/definitions/EDAMdata",                 "title": "Input data (EDAM Data)",                 "description": "Type of primary input data, if any (EDAM data).",                 "$comment": "An EDAM Data concept URL and / or term are specified, e.g. 'Protein sequences', http://edamontology.org/data_2976."             },             "format": {                 "title": "EDAM Format concept(s)",                 "description": "EDAM Format concept(s).",                 "type": "array",                 "items": {                     "$ref": "#/definitions/EDAMformat",                     "title": "Input format(s) (EDAM Format)",                     "description": "Allowed format(s) of the input data (EDAM Format). "                 }             }         },         "required": [             "data"         ],         "additionalProperties": false     } }

Array item wildcard tool / function > array items [0]+ / Schema / input > array items [0]+ / Schema

diagram
schema details	Title   Tool input Description   Details of primary input data.
type	Object
properties	Name    Occurrence data    Required format    Optional
source code	{     "title": "Tool input",     "description": "Details of primary input data.",     "type": "object",     "properties": {         "data": {             "$ref": "#/definitions/EDAMdata",             "title": "Input data (EDAM Data)",             "description": "Type of primary input data, if any (EDAM data).",             "$comment": "An EDAM Data concept URL and / or term are specified, e.g. 'Protein sequences', http://edamontology.org/data_2976."         },         "format": {             "title": "EDAM Format concept(s)",             "description": "EDAM Format concept(s).",             "type": "array",             "items": {                 "$ref": "#/definitions/EDAMformat",                 "title": "Input format(s) (EDAM Format)",                 "description": "Allowed format(s) of the input data (EDAM Format). "             }         }     },     "required": [         "data"     ],     "additionalProperties": false }

Property tool / function > array items [0]+ / Schema / input > array items [0]+ / Schema / data

diagram
property details	Occurrence   Required
reference	EDAMdata
source code	"data": {     "$ref": "#/definitions/EDAMdata",     "title": "Input data (EDAM Data)",     "description": "Type of primary input data, if any (EDAM data).",     "$comment": "An EDAM Data concept URL and / or term are specified, e.g. 'Protein sequences', http://edamontology.org/data_2976." }

Property tool / function > array items [0]+ / Schema / input > array items [0]+ / Schema / format

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Format concept(s) Description   EDAM Format concept(s).
type	Array
array items	[0]+   EDAMformat
source code	"format": {     "title": "EDAM Format concept(s)",     "description": "EDAM Format concept(s).",     "type": "array",     "items": {         "$ref": "#/definitions/EDAMformat",         "title": "Input format(s) (EDAM Format)",         "description": "Allowed format(s) of the input data (EDAM Format). "     } }

Property tool / function > array items [0]+ / Schema / output

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"output": {     "type": "array",     "items": {         "title": "Tool output",         "description": "Details of primary output data.",         "type": "object",         "properties": {             "data": {                 "$ref": "#/definitions/EDAMdata",                 "title": "Output data (EDAM Data)",                 "description": "Type of primary output data, if any (EDAM Data).",                 "$comment": "An EDAM Data concept URL and (optionally) term are specified, e.g. 'Sequence alignment', http://edamontology.org/data_0863."             },             "format": {                 "title": "EDAM Format concept(s)",                 "description": "EDAM Foramt concept(s)",                 "type": "array",                 "items": {                     "$ref": "#/definitions/EDAMformat",                     "title": "Output format(s) (EDAM Format)",                     "description": "Allowed format(s) of the output data (EDAM Format)."                 }             }         },         "required": [             "data"         ],         "additionalProperties": false     } }

Array item wildcard tool / function > array items [0]+ / Schema / output > array items [0]+ / Schema

diagram
schema details	Title   Tool output Description   Details of primary output data.
type	Object
properties	Name    Occurrence data    Required format    Optional
source code	{     "title": "Tool output",     "description": "Details of primary output data.",     "type": "object",     "properties": {         "data": {             "$ref": "#/definitions/EDAMdata",             "title": "Output data (EDAM Data)",             "description": "Type of primary output data, if any (EDAM Data).",             "$comment": "An EDAM Data concept URL and (optionally) term are specified, e.g. 'Sequence alignment', http://edamontology.org/data_0863."         },         "format": {             "title": "EDAM Format concept(s)",             "description": "EDAM Foramt concept(s)",             "type": "array",             "items": {                 "$ref": "#/definitions/EDAMformat",                 "title": "Output format(s) (EDAM Format)",                 "description": "Allowed format(s) of the output data (EDAM Format)."             }         }     },     "required": [         "data"     ],     "additionalProperties": false }

Property tool / function > array items [0]+ / Schema / output > array items [0]+ / Schema / data

diagram
property details	Occurrence   Required
reference	EDAMdata
source code	"data": {     "$ref": "#/definitions/EDAMdata",     "title": "Output data (EDAM Data)",     "description": "Type of primary output data, if any (EDAM Data).",     "$comment": "An EDAM Data concept URL and (optionally) term are specified, e.g. 'Sequence alignment', http://edamontology.org/data_0863." }

Property tool / function > array items [0]+ / Schema / output > array items [0]+ / Schema / format

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Format concept(s) Description   EDAM Foramt concept(s)
type	Array
array items	[0]+   EDAMformat
source code	"format": {     "title": "EDAM Format concept(s)",     "description": "EDAM Foramt concept(s)",     "type": "array",     "items": {         "$ref": "#/definitions/EDAMformat",         "title": "Output format(s) (EDAM Format)",         "description": "Allowed format(s) of the output data (EDAM Format)."     } }

Property tool / function > array items [0]+ / Schema / note

diagram
property details	Occurrence   Optional
schema details	Title   Function note Description   Concise comment about this function, if not apparent from the software description and EDAM annotations.
type	String
string constraints	Min Length   10 Max Length   1000
examples	Type    Value string    Concise comment about this function, if not apparent from the software description and EDAM annotations.
source code	"note": {     "title": "Function note",     "description": "Concise comment about this function, if not apparent from the software description and EDAM annotations.",     "type": "string",     "minLength": 10,     "maxLength": 1000,     "examples": [         "Concise comment about this function, if not apparent from the software description and EDAM annotations."     ] }

Property tool / function > array items [0]+ / Schema / cmd

diagram
property details	Occurrence   Optional
schema details	Title   Command-line snippet Description   Relevant command, command-line fragment or option for executing this function / running the tool in this mode.
type	String
string constraints	Min Length   1 Max Length   1000
examples	Type    Value string    -s best
source code	"cmd": {     "title": "Command-line snippet",     "description": "Relevant command, command-line fragment or option for executing this function / running the tool in this mode.",     "type": "string",     "minLength": 1,     "maxLength": 1000,     "examples": [         "-s best"     ] }

Property tool / link

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"link": {     "type": "array",     "items": {         "title": "Miscellaneous link",         "description": "A miscellaneous link for the software e.g. repository, issue tracker or mailing list.",         "type": "object",         "properties": {             "url": {                 "$ref": "#/definitions/urlftpType",                 "title": "Link URL",                 "description": "A link of some relevance to the software (URL)."             },             "type": {                 "type": "array",                 "minItems": 1,                 "items": {                     "title": "Type of link",                     "description": "The type of data, information or system that is obtained when the link is resolved.",                     "type": "string",                     "enum": [                         "Discussion forum",                         "Galaxy service",                         "Helpdesk",                         "Issue tracker",                         "Mailing list",                         "Mirror",                         "Software catalogue",                         "Repository",                         "Service",                         "Social media",                         "Technical monitoring",                         "Other"                     ]                 }             },             "note": {                 "$ref": "#/definitions/textType",                 "title": "Link comment",                 "description": "Comment about the link."             }         },         "required": [             "url",             "type"         ],         "additionalProperties": false     } }

Array item wildcard tool / link > array items [0]+ / Schema

diagram
schema details	Title   Miscellaneous link Description   A miscellaneous link for the software e.g. repository, issue tracker or mailing list.
type	Object
properties	Name    Occurrence url    Required type    Required note    Optional
source code	{     "title": "Miscellaneous link",     "description": "A miscellaneous link for the software e.g. repository, issue tracker or mailing list.",     "type": "object",     "properties": {         "url": {             "$ref": "#/definitions/urlftpType",             "title": "Link URL",             "description": "A link of some relevance to the software (URL)."         },         "type": {             "type": "array",             "minItems": 1,             "items": {                 "title": "Type of link",                 "description": "The type of data, information or system that is obtained when the link is resolved.",                 "type": "string",                 "enum": [                     "Discussion forum",                     "Galaxy service",                     "Helpdesk",                     "Issue tracker",                     "Mailing list",                     "Mirror",                     "Software catalogue",                     "Repository",                     "Service",                     "Social media",                     "Technical monitoring",                     "Other"                 ]             }         },         "note": {             "$ref": "#/definitions/textType",             "title": "Link comment",             "description": "Comment about the link."         }     },     "required": [         "url",         "type"     ],     "additionalProperties": false }

Property tool / link > array items [0]+ / Schema / url

diagram
property details	Occurrence   Required
reference	urlftpType
source code	"url": {     "$ref": "#/definitions/urlftpType",     "title": "Link URL",     "description": "A link of some relevance to the software (URL)." }

Property tool / link > array items [0]+ / Schema / type

diagram
property details	Occurrence   Required
type	Array
array constraints	Min Items   1
array items	[0]+   Schema
source code	"type": {     "type": "array",     "minItems": 1,     "items": {         "title": "Type of link",         "description": "The type of data, information or system that is obtained when the link is resolved.",         "type": "string",         "enum": [             "Discussion forum",             "Galaxy service",             "Helpdesk",             "Issue tracker",             "Mailing list",             "Mirror",             "Software catalogue",             "Repository",             "Service",             "Social media",             "Technical monitoring",             "Other"         ]     } }

Array item wildcard tool / link > array items [0]+ / Schema / type > array items [0]+ / Schema

diagram
schema details	Title   Type of link Description   The type of data, information or system that is obtained when the link is resolved.
type	String
enumerations	Type    Value string    Discussion forum string    Galaxy service string    Helpdesk string    Issue tracker string    Mailing list string    Mirror string    Software catalogue string    Repository string    Service string    Social media string    Technical monitoring string    Other
source code	{     "title": "Type of link",     "description": "The type of data, information or system that is obtained when the link is resolved.",     "type": "string",     "enum": [         "Discussion forum",         "Galaxy service",         "Helpdesk",         "Issue tracker",         "Mailing list",         "Mirror",         "Software catalogue",         "Repository",         "Service",         "Social media",         "Technical monitoring",         "Other"     ] }

Property tool / link > array items [0]+ / Schema / note

diagram
property details	Occurrence   Optional
reference	textType
source code	"note": {     "$ref": "#/definitions/textType",     "title": "Link comment",     "description": "Comment about the link." }

Property tool / download

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"download": {     "type": "array",     "items": {         "title": "Tool downloads",         "description": "A link to a download for the software, e.g. source code, virtual machine image or container.",         "type": "object",         "properties": {             "url": {                 "$ref": "#/definitions/urlftpType",                 "title": "Download URL",                 "description": "Link to download (or repository providing a download) for the software."             },             "type": {                 "title": "Download type",                 "description": "Type of download that is linked to.",                 "type": "string",                 "enum": [                     "API specification",                     "Biological data",                     "Binaries",                     "Command-line specification",                     "Container file",                     "Icon",                     "Software package",                     "Screenshot",                     "Source code",                     "Test data",                     "Test script",                     "Tool wrapper (CWL)",                     "Tool wrapper (Galaxy)",                     "Tool wrapper (Taverna)",                     "Tool wrapper (Other)",                     "VM image",                     "Downloads page",                     "Other"                 ]             },             "note": {                 "$ref": "#/definitions/textType",                 "title": "Downlad comment",                 "description": "Comment about the download."             },             "version": {                 "$ref": "#/definitions/versionType",                 "title": "Tool version information (download)",                 "description": "Version information (typically a version number) of the software applicable to this download."             }         },         "required": [             "url",             "type"         ],         "additionalProperties": false     } }

Array item wildcard tool / download > array items [0]+ / Schema

diagram
schema details	Title   Tool downloads Description   A link to a download for the software, e.g. source code, virtual machine image or container.
type	Object
properties	Name    Occurrence url    Required type    Required note    Optional version    Optional
source code	{     "title": "Tool downloads",     "description": "A link to a download for the software, e.g. source code, virtual machine image or container.",     "type": "object",     "properties": {         "url": {             "$ref": "#/definitions/urlftpType",             "title": "Download URL",             "description": "Link to download (or repository providing a download) for the software."         },         "type": {             "title": "Download type",             "description": "Type of download that is linked to.",             "type": "string",             "enum": [                 "API specification",                 "Biological data",                 "Binaries",                 "Command-line specification",                 "Container file",                 "Icon",                 "Software package",                 "Screenshot",                 "Source code",                 "Test data",                 "Test script",                 "Tool wrapper (CWL)",                 "Tool wrapper (Galaxy)",                 "Tool wrapper (Taverna)",                 "Tool wrapper (Other)",                 "VM image",                 "Downloads page",                 "Other"             ]         },         "note": {             "$ref": "#/definitions/textType",             "title": "Downlad comment",             "description": "Comment about the download."         },         "version": {             "$ref": "#/definitions/versionType",             "title": "Tool version information (download)",             "description": "Version information (typically a version number) of the software applicable to this download."         }     },     "required": [         "url",         "type"     ],     "additionalProperties": false }

Property tool / download > array items [0]+ / Schema / url

diagram
property details	Occurrence   Required
reference	urlftpType
source code	"url": {     "$ref": "#/definitions/urlftpType",     "title": "Download URL",     "description": "Link to download (or repository providing a download) for the software." }

Property tool / download > array items [0]+ / Schema / type

diagram
property details	Occurrence   Required
schema details	Title   Download type Description   Type of download that is linked to.
type	String
enumerations	Type    Value string    API specification string    Biological data string    Binaries string    Command-line specification string    Container file string    Icon string    Software package string    Screenshot string    Source code string    Test data string    Test script string    Tool wrapper (CWL) string    Tool wrapper (Galaxy) string    Tool wrapper (Taverna) string    Tool wrapper (Other) string    VM image string    Downloads page string    Other
source code	"type": {     "title": "Download type",     "description": "Type of download that is linked to.",     "type": "string",     "enum": [         "API specification",         "Biological data",         "Binaries",         "Command-line specification",         "Container file",         "Icon",         "Software package",         "Screenshot",         "Source code",         "Test data",         "Test script",         "Tool wrapper (CWL)",         "Tool wrapper (Galaxy)",         "Tool wrapper (Taverna)",         "Tool wrapper (Other)",         "VM image",         "Downloads page",         "Other"     ] }

Property tool / download > array items [0]+ / Schema / note

diagram
property details	Occurrence   Optional
reference	textType
source code	"note": {     "$ref": "#/definitions/textType",     "title": "Downlad comment",     "description": "Comment about the download." }

Property tool / download > array items [0]+ / Schema / version

diagram
property details	Occurrence   Optional
reference	versionType
source code	"version": {     "$ref": "#/definitions/versionType",     "title": "Tool version information (download)",     "description": "Version information (typically a version number) of the software applicable to this download." }

Property tool / documentation

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"documentation": {     "type": "array",     "items": {         "title": "Tool documentation",         "description": "A link to documentation about the software e.g. manual, API specification or training material.",         "type": "object",         "properties": {             "url": {                 "$ref": "#/definitions/urlftpType",                 "title": "Documentation URL",                 "description": "Link to documentation on the web for the tool."             },             "type": {                 "type": "array",                 "minItems": 1,                 "items": {                     "title": "Documentation type",                     "description": "Type of documentation that is linked to.",                     "type": "string",                     "enum": [                         "API documentation",                         "Citation instructions",                         "Code of conduct",                         "Command-line options",                         "Contributions policy",                         "FAQ",                         "General",                         "Governance",                         "Installation instructions",                         "User manual",                         "Release notes",                         "Terms of use",                         "Training material",                         "Other"                     ]                 }             },             "note": {                 "$ref": "#/definitions/textType",                 "title": "Documentation comment",                 "description": "Comment about the documentation."             }         },         "required": [             "url",             "type"         ],         "additionalProperties": false     } }

Array item wildcard tool / documentation > array items [0]+ / Schema

diagram
schema details	Title   Tool documentation Description   A link to documentation about the software e.g. manual, API specification or training material.
type	Object
properties	Name    Occurrence url    Required type    Required note    Optional
source code	{     "title": "Tool documentation",     "description": "A link to documentation about the software e.g. manual, API specification or training material.",     "type": "object",     "properties": {         "url": {             "$ref": "#/definitions/urlftpType",             "title": "Documentation URL",             "description": "Link to documentation on the web for the tool."         },         "type": {             "type": "array",             "minItems": 1,             "items": {                 "title": "Documentation type",                 "description": "Type of documentation that is linked to.",                 "type": "string",                 "enum": [                     "API documentation",                     "Citation instructions",                     "Code of conduct",                     "Command-line options",                     "Contributions policy",                     "FAQ",                     "General",                     "Governance",                     "Installation instructions",                     "User manual",                     "Release notes",                     "Terms of use",                     "Training material",                     "Other"                 ]             }         },         "note": {             "$ref": "#/definitions/textType",             "title": "Documentation comment",             "description": "Comment about the documentation."         }     },     "required": [         "url",         "type"     ],     "additionalProperties": false }

Property tool / documentation > array items [0]+ / Schema / url

diagram
property details	Occurrence   Required
reference	urlftpType
source code	"url": {     "$ref": "#/definitions/urlftpType",     "title": "Documentation URL",     "description": "Link to documentation on the web for the tool." }

Property tool / documentation > array items [0]+ / Schema / type

diagram
property details	Occurrence   Required
type	Array
array constraints	Min Items   1
array items	[0]+   Schema
source code	"type": {     "type": "array",     "minItems": 1,     "items": {         "title": "Documentation type",         "description": "Type of documentation that is linked to.",         "type": "string",         "enum": [             "API documentation",             "Citation instructions",             "Code of conduct",             "Command-line options",             "Contributions policy",             "FAQ",             "General",             "Governance",             "Installation instructions",             "User manual",             "Release notes",             "Terms of use",             "Training material",             "Other"         ]     } }

Array item wildcard tool / documentation > array items [0]+ / Schema / type > array items [0]+ / Schema

diagram
schema details	Title   Documentation type Description   Type of documentation that is linked to.
type	String
enumerations	Type    Value string    API documentation string    Citation instructions string    Code of conduct string    Command-line options string    Contributions policy string    FAQ string    General string    Governance string    Installation instructions string    User manual string    Release notes string    Terms of use string    Training material string    Other
source code	{     "title": "Documentation type",     "description": "Type of documentation that is linked to.",     "type": "string",     "enum": [         "API documentation",         "Citation instructions",         "Code of conduct",         "Command-line options",         "Contributions policy",         "FAQ",         "General",         "Governance",         "Installation instructions",         "User manual",         "Release notes",         "Terms of use",         "Training material",         "Other"     ] }

Property tool / documentation > array items [0]+ / Schema / note

diagram
property details	Occurrence   Optional
reference	textType
source code	"note": {     "$ref": "#/definitions/textType",     "title": "Documentation comment",     "description": "Comment about the documentation." }

Property tool / relation

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"relation": {     "type": "array",     "items": {         "title": "Tool relationships",         "description": "Details of a relationship this software shares with other software registered in bio.tools.",         "type": "object",         "properties": {             "type": {                 "title": "Tool relationship type",                 "description": "Type of relation between this and another registered software. (NOTE: Certain relations may only be defined between certain types of tool.)",                 "type": "string",                 "enum": [                     "isNewVersionOf",                     "hasNewVersion",                     "uses",                     "usedBy",                     "includes",                     "includedIn"                 ]             },             "biotoolsID": {                 "$ref": "#/definitions/biotoolsIdType",                 "title": "bio.tools toolID",                 "description": "bio.tools ID of an existing bio.tools entry which this software is related to.",                 "$comment": "Relations may only be defined between registered software.  The ID is a URL in the bio.tools namespace and reflects (normally exactly) the tool name and version: see http://biotools.readthedocs.io/."             }         },         "required": [             "type",             "biotoolsID"         ],         "additionalProperties": false     } }

Array item wildcard tool / relation > array items [0]+ / Schema

diagram
schema details	Title   Tool relationships Description   Details of a relationship this software shares with other software registered in bio.tools.
type	Object
properties	Name    Occurrence type    Required biotoolsID    Required
source code	{     "title": "Tool relationships",     "description": "Details of a relationship this software shares with other software registered in bio.tools.",     "type": "object",     "properties": {         "type": {             "title": "Tool relationship type",             "description": "Type of relation between this and another registered software. (NOTE: Certain relations may only be defined between certain types of tool.)",             "type": "string",             "enum": [                 "isNewVersionOf",                 "hasNewVersion",                 "uses",                 "usedBy",                 "includes",                 "includedIn"             ]         },         "biotoolsID": {             "$ref": "#/definitions/biotoolsIdType",             "title": "bio.tools toolID",             "description": "bio.tools ID of an existing bio.tools entry which this software is related to.",             "$comment": "Relations may only be defined between registered software.  The ID is a URL in the bio.tools namespace and reflects (normally exactly) the tool name and version: see http://biotools.readthedocs.io/."         }     },     "required": [         "type",         "biotoolsID"     ],     "additionalProperties": false }

Property tool / relation > array items [0]+ / Schema / type

diagram
property details	Occurrence   Required
schema details	Title   Tool relationship type Description   Type of relation between this and another registered software. (NOTE: Certain relations may only be defined between certain types of tool.)
type	String
enumerations	Type    Value string    isNewVersionOf string    hasNewVersion string    uses string    usedBy string    includes string    includedIn
source code	"type": {     "title": "Tool relationship type",     "description": "Type of relation between this and another registered software. (NOTE: Certain relations may only be defined between certain types of tool.)",     "type": "string",     "enum": [         "isNewVersionOf",         "hasNewVersion",         "uses",         "usedBy",         "includes",         "includedIn"     ] }

Property tool / relation > array items [0]+ / Schema / biotoolsID

diagram
property details	Occurrence   Required
reference	biotoolsIdType
source code	"biotoolsID": {     "$ref": "#/definitions/biotoolsIdType",     "title": "bio.tools toolID",     "description": "bio.tools ID of an existing bio.tools entry which this software is related to.",     "$comment": "Relations may only be defined between registered software.  The ID is a URL in the bio.tools namespace and reflects (normally exactly) the tool name and version: see http://biotools.readthedocs.io/." }

Property tool / publication

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"publication": {     "type": "array",     "items": {         "description": "A publication about the software.",         "type": "object",         "properties": {             "doi": {                 "title": "Publication DOI",                 "description": "Digital Object Identifier (DOI) of a publication about the software.",                 "type": "string",                 "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$",                 "examples": [                     "10.1093/nar/gkv1116"                 ]             },             "pmid": {                 "title": "Publication PMID",                 "description": "PubMed Identifier (PMID) of a publication about the software.",                 "type": "string",                 "pattern": "^([1-9][0-9]{0,8})$",                 "examples": [                     "26538599"                 ]             },             "pmcid": {                 "title": "Publicaction PMCID",                 "description": "PubMed Central Identifier (PMCID) of a publication about the software.",                 "type": "string",                 "pattern": "^((PMC)[1-9][0-9]{0,8})$",                 "examples": [                     "PMC4702812"                 ]             },             "type": {                 "type": "array",                 "items": {                     "title": "Publication type",                     "description": "Type of publication. ",                     "type": "string",                     "enum": [                         "Primary",                         "Benchmarking study",                         "Method",                         "Usage",                         "Review",                         "Other"                     ]                 }             },             "note": {                 "$ref": "#/definitions/textType",                 "title": "Publication comment",                 "description": "Comment about the publication."             },             "version": {                 "$ref": "#/definitions/versionType",                 "description": "Version information (typically a version number) of the software applicable to this publication."             }         },         "additionalProperties": false     } }

Array item wildcard tool / publication > array items [0]+ / Schema

diagram
schema details	Description   A publication about the software.
type	Object
properties	Name    Occurrence doi    Optional pmid    Optional pmcid    Optional type    Optional note    Optional version    Optional
source code	{     "description": "A publication about the software.",     "type": "object",     "properties": {         "doi": {             "title": "Publication DOI",             "description": "Digital Object Identifier (DOI) of a publication about the software.",             "type": "string",             "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$",             "examples": [                 "10.1093/nar/gkv1116"             ]         },         "pmid": {             "title": "Publication PMID",             "description": "PubMed Identifier (PMID) of a publication about the software.",             "type": "string",             "pattern": "^([1-9][0-9]{0,8})$",             "examples": [                 "26538599"             ]         },         "pmcid": {             "title": "Publicaction PMCID",             "description": "PubMed Central Identifier (PMCID) of a publication about the software.",             "type": "string",             "pattern": "^((PMC)[1-9][0-9]{0,8})$",             "examples": [                 "PMC4702812"             ]         },         "type": {             "type": "array",             "items": {                 "title": "Publication type",                 "description": "Type of publication. ",                 "type": "string",                 "enum": [                     "Primary",                     "Benchmarking study",                     "Method",                     "Usage",                     "Review",                     "Other"                 ]             }         },         "note": {             "$ref": "#/definitions/textType",             "title": "Publication comment",             "description": "Comment about the publication."         },         "version": {             "$ref": "#/definitions/versionType",             "description": "Version information (typically a version number) of the software applicable to this publication."         }     },     "additionalProperties": false }

Property tool / publication > array items [0]+ / Schema / doi

diagram
property details	Occurrence   Optional
schema details	Title   Publication DOI Description   Digital Object Identifier (DOI) of a publication about the software.
type	String
string constraints	Pattern   ^(10\.[0-9]{4,9}/[\(-\)\--<>A-\[\]_a-z]+)$
examples	Type    Value string    10.1093/nar/gkv1116
source code	"doi": {     "title": "Publication DOI",     "description": "Digital Object Identifier (DOI) of a publication about the software.",     "type": "string",     "pattern": "^(10\\.[0-9]{4,9}/[\\(-\\)\\--<>A-\\[\\]_a-z]+)$",     "examples": [         "10.1093/nar/gkv1116"     ] }

Property tool / publication > array items [0]+ / Schema / pmid

diagram
property details	Occurrence   Optional
schema details	Title   Publication PMID Description   PubMed Identifier (PMID) of a publication about the software.
type	String
string constraints	Pattern   ^([1-9][0-9]{0,8})$
examples	Type    Value string    26538599
source code	"pmid": {     "title": "Publication PMID",     "description": "PubMed Identifier (PMID) of a publication about the software.",     "type": "string",     "pattern": "^([1-9][0-9]{0,8})$",     "examples": [         "26538599"     ] }

Property tool / publication > array items [0]+ / Schema / pmcid

diagram
property details	Occurrence   Optional
schema details	Title   Publicaction PMCID Description   PubMed Central Identifier (PMCID) of a publication about the software.
type	String
string constraints	Pattern   ^((PMC)[1-9][0-9]{0,8})$
examples	Type    Value string    PMC4702812
source code	"pmcid": {     "title": "Publicaction PMCID",     "description": "PubMed Central Identifier (PMCID) of a publication about the software.",     "type": "string",     "pattern": "^((PMC)[1-9][0-9]{0,8})$",     "examples": [         "PMC4702812"     ] }

Property tool / publication > array items [0]+ / Schema / type

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"type": {     "type": "array",     "items": {         "title": "Publication type",         "description": "Type of publication. ",         "type": "string",         "enum": [             "Primary",             "Benchmarking study",             "Method",             "Usage",             "Review",             "Other"         ]     } }

Array item wildcard tool / publication > array items [0]+ / Schema / type > array items [0]+ / Schema

diagram
schema details	Title   Publication type Description   Type of publication.
type	String
enumerations	Type    Value string    Primary string    Benchmarking study string    Method string    Usage string    Review string    Other
source code	{     "title": "Publication type",     "description": "Type of publication. ",     "type": "string",     "enum": [         "Primary",         "Benchmarking study",         "Method",         "Usage",         "Review",         "Other"     ] }

Property tool / publication > array items [0]+ / Schema / note

diagram
property details	Occurrence   Optional
reference	textType
source code	"note": {     "$ref": "#/definitions/textType",     "title": "Publication comment",     "description": "Comment about the publication." }

Property tool / publication > array items [0]+ / Schema / version

diagram
property details	Occurrence   Optional
reference	versionType
source code	"version": {     "$ref": "#/definitions/versionType",     "description": "Version information (typically a version number) of the software applicable to this publication." }

Property tool / credit

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"credit": {     "type": "array",     "items": {         "title": "Tool credits",         "description": "An individual or organisation that should be credited, or may be contacted about the software.",         "type": "object",         "properties": {             "name": {                 "title": "Tool credit name",                 "description": "Name of the entity that is credited.",                 "type": "string",                 "minLength": 1,                 "maxLength": 100             },             "email": {                 "title": "Tool credit email",                 "description": "Email address of the entity that is credited.",                 "type": "string",                 "pattern": "^([0-9A-Z_a-z]+(['\\+\\--\\.][0-9A-Z_a-z]+)*@[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*\\.[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*)$"             },             "url": {                 "title": "Tool credit URL",                 "description": "URL for the entity that is credited, e.g. homepage of an institute. (NOTE: An HTTP or HTTPS URL.)",                 "type": "string"             },             "orcidid": {                 "title": "Tool credit ORCID iD",                 "description": "Unique identifier (ORCID iD) of a person that is credited. (NOTE: Open Researcher and Contributor IDs (ORCID IDs) provide a persistent reference to information on a researcher, see http://orcid.org/.)",                 "type": "string",                 "anyOf": [                     {                         "pattern": "^(http\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"                     },                     {                         "pattern": "^(https\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"                     }                 ]             },             "gridid": {                 "title": "Tool credit GRID ID",                 "description": "Unique identifier (GRID ID) of an organisation that is credited. (NOTE: Global Research Identifier Database (GRID) IDs provide a persistent reference to information on research organisations, see https://www.grid.ac/.)",                 "type": "string",                 "pattern": "^(grid[\\w\\D][0-9]{4,}[\\w\\D][0-9a-f]{1,2})$"             },             "typeEntity": {                 "title": "Tool credit entity type",                 "description": "Type of entity that is credited.",                 "type": "string",                 "enum": [                     "Person",                     "Project",                     "Division",                     "Institute",                     "Consortium",                     "Funding agency"                 ]             },             "typeRole": {                 "type": "array",                 "items": {                     "title": "Tool credit role type",                     "description": "Role performed by entity that is credited.",                     "type": "string",                     "enum": [                         "Primary contact",                         "Contributor",                         "Developer",                         "Documentor",                         "Maintainer",                         "Provider",                         "Support"                     ]                 }             },             "note": {                 "$ref": "#/definitions/textType",                 "title": "Tool credit comment",                 "description": "A comment about the credit.\nThis can elaborate on the contribution of the credited entity."             }         },         "required": [             "name"         ],         "additionalProperties": false     } }

Array item wildcard tool / credit > array items [0]+ / Schema

diagram
schema details	Title   Tool credits Description   An individual or organisation that should be credited, or may be contacted about the software.
type	Object
properties	Name    Occurrence name    Required email    Optional url    Optional orcidid    Optional gridid    Optional typeEntity    Optional typeRole    Optional note    Optional
source code	{     "title": "Tool credits",     "description": "An individual or organisation that should be credited, or may be contacted about the software.",     "type": "object",     "properties": {         "name": {             "title": "Tool credit name",             "description": "Name of the entity that is credited.",             "type": "string",             "minLength": 1,             "maxLength": 100         },         "email": {             "title": "Tool credit email",             "description": "Email address of the entity that is credited.",             "type": "string",             "pattern": "^([0-9A-Z_a-z]+(['\\+\\--\\.][0-9A-Z_a-z]+)*@[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*\\.[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*)$"         },         "url": {             "title": "Tool credit URL",             "description": "URL for the entity that is credited, e.g. homepage of an institute. (NOTE: An HTTP or HTTPS URL.)",             "type": "string"         },         "orcidid": {             "title": "Tool credit ORCID iD",             "description": "Unique identifier (ORCID iD) of a person that is credited. (NOTE: Open Researcher and Contributor IDs (ORCID IDs) provide a persistent reference to information on a researcher, see http://orcid.org/.)",             "type": "string",             "anyOf": [                 {                     "pattern": "^(http\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"                 },                 {                     "pattern": "^(https\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"                 }             ]         },         "gridid": {             "title": "Tool credit GRID ID",             "description": "Unique identifier (GRID ID) of an organisation that is credited. (NOTE: Global Research Identifier Database (GRID) IDs provide a persistent reference to information on research organisations, see https://www.grid.ac/.)",             "type": "string",             "pattern": "^(grid[\\w\\D][0-9]{4,}[\\w\\D][0-9a-f]{1,2})$"         },         "typeEntity": {             "title": "Tool credit entity type",             "description": "Type of entity that is credited.",             "type": "string",             "enum": [                 "Person",                 "Project",                 "Division",                 "Institute",                 "Consortium",                 "Funding agency"             ]         },         "typeRole": {             "type": "array",             "items": {                 "title": "Tool credit role type",                 "description": "Role performed by entity that is credited.",                 "type": "string",                 "enum": [                     "Primary contact",                     "Contributor",                     "Developer",                     "Documentor",                     "Maintainer",                     "Provider",                     "Support"                 ]             }         },         "note": {             "$ref": "#/definitions/textType",             "title": "Tool credit comment",             "description": "A comment about the credit.\nThis can elaborate on the contribution of the credited entity."         }     },     "required": [         "name"     ],     "additionalProperties": false }

Property tool / credit > array items [0]+ / Schema / name

diagram
property details	Occurrence   Required
schema details	Title   Tool credit name Description   Name of the entity that is credited.
type	String
string constraints	Min Length   1 Max Length   100
source code	"name": {     "title": "Tool credit name",     "description": "Name of the entity that is credited.",     "type": "string",     "minLength": 1,     "maxLength": 100 }

Property tool / credit > array items [0]+ / Schema / email

diagram
property details	Occurrence   Optional
schema details	Title   Tool credit email Description   Email address of the entity that is credited.
type	String
string constraints	Pattern   ^([0-9A-Z_a-z]+(['\+\--\.][0-9A-Z_a-z]+)*@[0-9A-Z_a-z]+([\--\.][0-9A-Z_a-z]+)*\.[0-9A-Z_a-z]+([\--\.][0-9A-Z_a-z]+)*)$
source code	"email": {     "title": "Tool credit email",     "description": "Email address of the entity that is credited.",     "type": "string",     "pattern": "^([0-9A-Z_a-z]+(['\\+\\--\\.][0-9A-Z_a-z]+)*@[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*\\.[0-9A-Z_a-z]+([\\--\\.][0-9A-Z_a-z]+)*)$" }

Property tool / credit > array items [0]+ / Schema / url

diagram
property details	Occurrence   Optional
schema details	Title   Tool credit URL Description   URL for the entity that is credited, e.g. homepage of an institute. (NOTE: An HTTP or HTTPS URL.)
type	String
source code	"url": {     "title": "Tool credit URL",     "description": "URL for the entity that is credited, e.g. homepage of an institute. (NOTE: An HTTP or HTTPS URL.)",     "type": "string" }

Property tool / credit > array items [0]+ / Schema / orcidid

diagram
property details	Occurrence   Optional
schema details	Title   Tool credit ORCID iD Description   Unique identifier (ORCID iD) of a person that is credited. (NOTE: Open Researcher and Contributor IDs (ORCID IDs) provide a persistent reference to information on a researcher, see http://orcid.org/.)
type	String
any of	(0)   Schema (1)   Schema
source code	"orcidid": {     "title": "Tool credit ORCID iD",     "description": "Unique identifier (ORCID iD) of a person that is credited. (NOTE: Open Researcher and Contributor IDs (ORCID IDs) provide a persistent reference to information on a researcher, see http://orcid.org/.)",     "type": "string",     "anyOf": [         {             "pattern": "^(http\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"         },         {             "pattern": "^(https\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$"         }     ] }

Operator subschema tool / credit > array items [0]+ / Schema / orcidid > any of (0) / Schema

diagram
type	Any
string constraints	Pattern   ^(http\://orcid\.org/[0-9]{4,4}\-[0-9]{4,4}\-[0-9]{4,4}\-[0-9]{3,3}[0-9X])$
array items	[0]+   Unconstrained
property wildcard	Definition   Unconstrained
source code	{     "pattern": "^(http\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$" }

Operator subschema tool / credit > array items [0]+ / Schema / orcidid > any of (1) / Schema

diagram
type	Any
string constraints	Pattern   ^(https\://orcid\.org/[0-9]{4,4}\-[0-9]{4,4}\-[0-9]{4,4}\-[0-9]{3,3}[0-9X])$
array items	[0]+   Unconstrained
property wildcard	Definition   Unconstrained
source code	{     "pattern": "^(https\\://orcid\\.org/[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{4,4}\\-[0-9]{3,3}[0-9X])$" }

Property tool / credit > array items [0]+ / Schema / gridid

diagram
property details	Occurrence   Optional
schema details	Title   Tool credit GRID ID Description   Unique identifier (GRID ID) of an organisation that is credited. (NOTE: Global Research Identifier Database (GRID) IDs provide a persistent reference to information on research organisations, see https://www.grid.ac/.)
type	String
string constraints	Pattern   ^(grid[\w\D][0-9]{4,}[\w\D][0-9a-f]{1,2})$
source code	"gridid": {     "title": "Tool credit GRID ID",     "description": "Unique identifier (GRID ID) of an organisation that is credited. (NOTE: Global Research Identifier Database (GRID) IDs provide a persistent reference to information on research organisations, see https://www.grid.ac/.)",     "type": "string",     "pattern": "^(grid[\\w\\D][0-9]{4,}[\\w\\D][0-9a-f]{1,2})$" }

Property tool / credit > array items [0]+ / Schema / typeEntity

diagram
property details	Occurrence   Optional
schema details	Title   Tool credit entity type Description   Type of entity that is credited.
type	String
enumerations	Type    Value string    Person string    Project string    Division string    Institute string    Consortium string    Funding agency
source code	"typeEntity": {     "title": "Tool credit entity type",     "description": "Type of entity that is credited.",     "type": "string",     "enum": [         "Person",         "Project",         "Division",         "Institute",         "Consortium",         "Funding agency"     ] }

Property tool / credit > array items [0]+ / Schema / typeRole

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   Schema
source code	"typeRole": {     "type": "array",     "items": {         "title": "Tool credit role type",         "description": "Role performed by entity that is credited.",         "type": "string",         "enum": [             "Primary contact",             "Contributor",             "Developer",             "Documentor",             "Maintainer",             "Provider",             "Support"         ]     } }

Array item wildcard tool / credit > array items [0]+ / Schema / typeRole > array items [0]+ / Schema

diagram
schema details	Title   Tool credit role type Description   Role performed by entity that is credited.
type	String
enumerations	Type    Value string    Primary contact string    Contributor string    Developer string    Documentor string    Maintainer string    Provider string    Support
source code	{     "title": "Tool credit role type",     "description": "Role performed by entity that is credited.",     "type": "string",     "enum": [         "Primary contact",         "Contributor",         "Developer",         "Documentor",         "Maintainer",         "Provider",         "Support"     ] }

Property tool / credit > array items [0]+ / Schema / note

diagram
property details	Occurrence   Optional
reference	textType
source code	"note": {     "$ref": "#/definitions/textType",     "title": "Tool credit comment",     "description": "A comment about the credit.\nThis can elaborate on the contribution of the credited entity." }

Schema definition EDAMdata

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   EDAM Data concept Description   EDAM Data concept.
type	Object
properties	Name    Occurrence term    Optional uri    Optional
used by	tool / function > array items [0]+ / Schema / input > array items [0]+ / Schema / data tool / function > array items [0]+ / Schema / output > array items [0]+ / Schema / data dataType / data
source code	"EDAMdata": {     "title": "EDAM Data concept",     "description": "EDAM Data concept.",     "type": "object",     "properties": {         "term": {             "title": "EDAM Data term",             "description": "An EDAM Data term (preferred label or synonym).",             "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",             "type": "string",             "examples": [                 "Protein sequences"             ]         },         "uri": {             "title": "EDAM Data URI",             "description": "URL of an EDAM Data concept.",             "$comment": "The URL must be in the EDAM Data namespace, i.e. http://edamontology.org/data.",             "type": "string",             "pattern": "^(http\\://edamontology\\.org/data_[0-9]{4,4})$",             "examples": [                 "http://edamontology.org/data_2976"             ]         }     },     "additionalProperties": false }

Property EDAMdata / term

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Data term Description   An EDAM Data term (preferred label or synonym). Comment   The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.
type	String
examples	Type    Value string    Protein sequences
source code	"term": {     "title": "EDAM Data term",     "description": "An EDAM Data term (preferred label or synonym).",     "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",     "type": "string",     "examples": [         "Protein sequences"     ] }

Property EDAMdata / uri

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Data URI Description   URL of an EDAM Data concept. Comment   The URL must be in the EDAM Data namespace, i.e. http://edamontology.org/data.
type	String
string constraints	Pattern   ^(http\://edamontology\.org/data_[0-9]{4,4})$
examples	Type    Value string    http://edamontology.org/data_2976
source code	"uri": {     "title": "EDAM Data URI",     "description": "URL of an EDAM Data concept.",     "$comment": "The URL must be in the EDAM Data namespace, i.e. http://edamontology.org/data.",     "type": "string",     "pattern": "^(http\\://edamontology\\.org/data_[0-9]{4,4})$",     "examples": [         "http://edamontology.org/data_2976"     ] }

Schema definition EDAMformat

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   EDAM Format concept Description   EDAM Format concept.
type	Object
properties	Name    Occurrence term    Optional uri    Optional
used by	tool / function > array items [0]+ / Schema / input > array items [0]+ / Schema / format tool / function > array items [0]+ / Schema / output > array items [0]+ / Schema / format dataType / format
source code	"EDAMformat": {     "title": "EDAM Format concept",     "description": "EDAM Format concept.",     "type": "object",     "properties": {         "term": {             "title": "EDAM Format term",             "description": "An EDAM Format term (preferred label or synonym).",             "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",             "type": "string",             "examples": [                 "FASTA"             ]         },         "uri": {             "title": "EDAM Format URI",             "description": "URL of an EDAM Format concept.",             "$comment": "The URL must be in the EDAM  Format namespace, i.e. http://edamontology.org/format.",             "type": "string",             "pattern": "^(http\\://edamontology\\.org/format_[0-9]{4,4})$",             "examples": [                 "http://edamontology.org/format_1929"             ]         }     },     "additionalProperties": false }

Property EDAMformat / term

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Format term Description   An EDAM Format term (preferred label or synonym). Comment   The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.
type	String
examples	Type    Value string    FASTA
source code	"term": {     "title": "EDAM Format term",     "description": "An EDAM Format term (preferred label or synonym).",     "$comment": "The term must be either the preferred label of the concept or a synonym of this term, as defined in EDAM.",     "type": "string",     "examples": [         "FASTA"     ] }

Property EDAMformat / uri

diagram
property details	Occurrence   Optional
schema details	Title   EDAM Format URI Description   URL of an EDAM Format concept. Comment   The URL must be in the EDAM Format namespace, i.e. http://edamontology.org/format.
type	String
string constraints	Pattern   ^(http\://edamontology\.org/format_[0-9]{4,4})$
examples	Type    Value string    http://edamontology.org/format_1929
source code	"uri": {     "title": "EDAM Format URI",     "description": "URL of an EDAM Format concept.",     "$comment": "The URL must be in the EDAM  Format namespace, i.e. http://edamontology.org/format.",     "type": "string",     "pattern": "^(http\\://edamontology\\.org/format_[0-9]{4,4})$",     "examples": [         "http://edamontology.org/format_1929"     ] }

Schema definition biotoolsIdType

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   bio.tools toolID Description   Tool unique identifier assigned by bio.tools. Comment   bio.tools tool IDs are a URL-safe and Linked-Data-safe derivative of (often identical to) the tool name. Allowed characters are uppercase and lowercase English letters (case insensitive!), decimal digits, hyphen, period, and underscore. Spaces can be preserved as underscore ('_'). bio.tools tool IDs are set by bio.tools admin and will be disregarded if specified in a payload (e.g. PUSH, POST) to the bio.tools API.)
type	String
string constraints	Pattern   ^([\--\.0-9A-Z_a-z]*)$
examples	Type    Value string    needle
used by	tool / biotoolsID tool / relation > array items [0]+ / Schema / biotoolsID
source code	"biotoolsIdType": {     "title": "bio.tools toolID",     "description": "Tool unique identifier assigned by bio.tools.",     "$comment": "bio.tools tool IDs are a URL-safe and Linked-Data-safe derivative of (often identical to) the tool name. Allowed characters are uppercase and lowercase English letters (case insensitive!), decimal digits, hyphen, period, and underscore. Spaces can be preserved as underscore ('_'). bio.tools tool IDs are set by bio.tools admin and will be disregarded if specified in a payload (e.g. PUSH, POST) to the bio.tools API.)",     "type": "string",     "pattern": "^([\\--\\.0-9A-Z_a-z]*)$",     "examples": [         "needle"     ] }

Schema definition dataType

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   Tool input or output Description   Tool input or output.
type	Object
properties	Name    Occurrence data    Required format    Optional
source code	"dataType": {     "title": "Tool input or output",     "description": "Tool input or output.",     "type": "object",     "properties": {         "data": {             "$ref": "#/definitions/EDAMdata",             "title": "EDAM Data concept",             "description": "Type of data: EDAM Data term(s)."         },         "format": {             "type": "array",             "items": {                 "$ref": "#/definitions/EDAMformat",                 "title": "EDAM Format concept",                 "description": "Allowed format(s) of the data: EDAM Format term(s)."             }         }     },     "required": [         "data"     ],     "additionalProperties": false }

Property dataType / data

diagram
property details	Occurrence   Required
reference	EDAMdata
source code	"data": {     "$ref": "#/definitions/EDAMdata",     "title": "EDAM Data concept",     "description": "Type of data: EDAM Data term(s)." }

Property dataType / format

diagram
property details	Occurrence   Optional
type	Array
array items	[0]+   EDAMformat
source code	"format": {     "type": "array",     "items": {         "$ref": "#/definitions/EDAMformat",         "title": "EDAM Format concept",         "description": "Allowed format(s) of the data: EDAM Format term(s)."     } }

Schema definition ontologyConcept

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   Ontology concept Description   A concept from an ontology.
type	Object
properties	Name    Occurrence term    Optional uri    Optional
source code	"ontologyConcept": {     "title": "Ontology concept",     "description": "A concept from an ontology.",     "type": "object",     "properties": {         "term": {             "type": "array",             "minItems": 0,             "maxItems": 1,             "items": {                 "title": "Ontology term",                 "description": "An ontology concept term (preferred label or synonym).",                 "type": "string"             }         },         "uri": {             "title": "Ontology concept URI",             "description": "Unique identifier of the concept (URI).",             "type": "string"         }     },     "additionalProperties": false }

Property ontologyConcept / term

diagram
property details	Occurrence   Optional
type	Array
array constraints	Min Items   0 Max Items   1
array items	[0]   Schema
source code	"term": {     "type": "array",     "minItems": 0,     "maxItems": 1,     "items": {         "title": "Ontology term",         "description": "An ontology concept term (preferred label or synonym).",         "type": "string"     } }

Array item wildcard ontologyConcept / term > array items [0]+ / Schema

diagram
schema details	Title   Ontology term Description   An ontology concept term (preferred label or synonym).
type	String
source code	{     "title": "Ontology term",     "description": "An ontology concept term (preferred label or synonym).",     "type": "string" }

Property ontologyConcept / uri

diagram
property details	Occurrence   Optional
schema details	Title   Ontology concept URI Description   Unique identifier of the concept (URI).
type	String
source code	"uri": {     "title": "Ontology concept URI",     "description": "Unique identifier of the concept (URI).",     "type": "string" }

Schema definition textType

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   Free text Description   Free text with a minimum length of 10 and maximum length of 1000. Comment   Line feeds, carriage returns, tabs, leading and trailing spaces, and multiple spaces are not allowed / will be removed.
type	String
string constraints	Min Length   10 Max Length   1000
examples	Type    Value string    Comment about the link.
used by	tool / link > array items [0]+ / Schema / note tool / download > array items [0]+ / Schema / note tool / documentation > array items [0]+ / Schema / note tool / publication > array items [0]+ / Schema / note tool / credit > array items [0]+ / Schema / note
source code	"textType": {     "title": "Free text",     "description": "Free text with a minimum length of 10 and maximum length of 1000.",     "$comment": "Line feeds, carriage returns, tabs, leading and trailing spaces, and multiple spaces are not allowed / will be removed.",     "type": "string",     "minLength": 10,     "maxLength": 1000,     "examples": [         "Comment about the link."     ] }

Schema definition urlftpType

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   Tool homepage URL Description   Homepage of the software, or some URL that best serves this purpose.
type	String
examples	Type    Value string    https://someurl.org
used by	tool / homepage tool / link > array items [0]+ / Schema / url tool / download > array items [0]+ / Schema / url tool / documentation > array items [0]+ / Schema / url
source code	"urlftpType": {     "title": "Tool homepage URL",     "description": "Homepage of the software, or some URL that best serves this purpose.",     "type": "string",     "examples": [         "https://someurl.org"     ] }

Schema definition versionType

diagram
location	E:\repos\GitHub\biotoolsSchema\json\biotools.json
schema details	Title   Tool version information Description   Tool version label or version range. Comment   The name has a 100 character limit and may only contain space, uppercase and lowercase English letters, decimal digits, plus symbol, period, comma, dash, colon, semicolon and parentheses.
type	String
string constraints	Min Length   1 Max Length   100 Pattern   ^([ \(-\)\+-\.0-;A-Z_a-z  ᠎ -   　]*)$
examples	Type    Value string    2.0 - 2.7
used by	tool / version tool / download > array items [0]+ / Schema / version tool / publication > array items [0]+ / Schema / version
source code	"versionType": {     "title": "Tool version information",     "description": "Tool version label or version range.",     "$comment": "The name has a 100 character limit and may only contain space, uppercase and lowercase English letters, decimal digits, plus symbol, period, comma, dash, colon, semicolon and parentheses.",     "type": "string",     "minLength": 1,     "maxLength": 100,     "pattern": "^([ \\(-\\)\\+-\\.0-;A-Z_a-z  ᠎ -   　]*)$",     "examples": [         "2.0 - 2.7"     ] }

JSON Schema documentation generated by XMLSpy JSON Schema Editor http://www.altova.com/xmlspy/json-schema-editor.html