GET /api/tool/?format=api&offset=100&ordering=-operating_system
HTTP 200 OK
Allow: GET, POST, HEAD, OPTIONS
Content-Type: application/json
Vary: Accept

{
    "count": 211,
    "next": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=120&ordering=-operating_system",
    "previous": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=80&ordering=-operating_system",
    "results": [
        {
            "id": 106,
            "name": "Lifemap",
            "description": "Explorer of the entire tree of life. Lifemap allows visualizing the entire NCBI taxonomy on a single page with a deep zoom interface and performing easy search, mrca detection, subtree download, etc.",
            "homepage": "http://lifemap.univ-lyon1.fr",
            "biotoolsID": "Lifemap",
            "biotoolsCURIE": "biotools:Lifemap",
            "tool_type": [
                "Web service",
                "Web application"
            ],
            "collection": [
                "elixir-fr-sdp-2019"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3299",
                "http://edamontology.org/topic_3050"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [],
            "tool_licence": "CC-BY-NC-4.0",
            "documentation": "http://lifemap.univ-lyon1.fr/help/",
            "maturity": "Legacy",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2020-06-16T10:55:27Z",
            "teams": [],
            "source_repository": "https://github.com/damiendevienne/Lifemap"
        },
        {
            "id": 153,
            "name": "xHeinz",
            "description": "Software solver that searches for active subnetwork modules that are conserved between two species. It uses a branch-and-cut algorithm that finds provably optimal or near-optimal solutions. Active subnetwork modules are sets of genes, one for each species, which: - induce a connected subnetwork in a species-specific interaction network, - show overall differential behavior, and - contain a large number of orthologous genes.",
            "homepage": "https://github.com/ls-cwi/xheinz",
            "biotoolsID": "xheinz",
            "biotoolsCURIE": "biotools:xheinz",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0602"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/btv316"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Tobias Müller",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "https://github.com/ls-cwi/xheinz",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Hayssam Soueidan",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Marcus Dittrich",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Mohammed El-Kebir",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "u-bordeaux.fr",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Thomas Hume",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Daniela Beisser",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Macha Nikolski",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Lodewyk F. A. Wessels",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Jaap Heringa",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Gunnar W. Klau",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Guillaume Blin",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Bordeaux University, CBiB, France",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "The Netherlands",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Würzburg University, Germany",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "University Duisburg-Essen",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "The Netherlands Cancer Institute, Amsterdam",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Univ. Bordeaux, CNRS/LaBRI, 33405 Talence, France,",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                }
            ],
            "tool_licence": "MIT",
            "documentation": "https://github.com/ls-cwi/xheinz",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2019-03-12T14:52:11Z",
            "teams": [
                "CBiB"
            ],
            "source_repository": "https://software.cwi.nl/software/xheinz/releases/1.0"
        },
        {
            "id": 1,
            "name": "VirHostnet",
            "description": "Virus-Host Network is a knowledge-base system dedicated to the curation, the integration, the management and the analysis of virus-host molecular (mainly protein-protein) interaction networks as well as their functional annotation (molecular functions, cellular pathways, protein domains). VirHostNet contains high quality and up-to-date information gathered and curated from public databases.",
            "homepage": "http://virhostnet.prabi.fr/",
            "biotoolsID": "virhostnet",
            "biotoolsCURIE": "biotools:virhostnet",
            "tool_type": [
                "Database portal",
                "Bioinformatics portal",
                "Web service"
            ],
            "collection": [
                "COVID-19",
                "PRABI"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0602",
                "http://edamontology.org/topic_0128",
                "http://edamontology.org/topic_3957",
                "http://edamontology.org/topic_0781",
                "http://edamontology.org/topic_3324"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "VirHostNet Support",
                    "email": "vincent.navratil@univ-lyon1.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0001-9974-1877",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": "Head of the prabi-amsb bioinformatics core facility (http://amsb.prabi.fr)"
                }
            ],
            "tool_licence": "Not licensed",
            "documentation": "https://pbil.univ-lyon1.fr/redmine/projects/virhostscape/wiki",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2020-12-08T10:41:55Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 105,
            "name": "REPET",
            "description": "The REPET package integrates bioinformatics pipelines dedicated to detect, annotate and analyze transposable elements (TEs) in genomic sequences. The main pipelines are (i) TEdenovo, which search for interspersed repeats, build consensus sequences and classify them according to TE features, and (ii)\n TEannot, which mines a genome with a library of TE sequences, for instance the one produced by the TEdenovo pipeline, to provide TE annotations exported into GFF3 files.",
            "homepage": "https://urgi.versailles.inrae.fr/Tools/REPET",
            "biotoolsID": "repet",
            "biotoolsCURIE": "biotools:repet",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [
                "elixir-fr-sdp-2019",
                "URGI",
                "REPET",
                "PlantBioinfoPF"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0157",
                "http://edamontology.org/topic_0654",
                "http://edamontology.org/topic_0097"
            ],
            "primary_publication": [
                "10.1371/journal.pone.0091929",
                "10.1371/journal.pone.0016526",
                "10.1371/journal.pcbi.0010022",
                "10.1007/s00239-003-0007-2"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Documentor",
                        "Maintainer",
                        "Contributor",
                        "Support",
                        "Developer",
                        "Provider"
                    ],
                    "name": "URGI",
                    "email": "urgi-repet@versailles.inra.fr",
                    "url": "http://urgi.versailles.inra.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": "This tool has a \"Numero de depot APP\": FR 001 480007 000 R P 2008 000 31 235"
                },
                {
                    "type_role": [
                        "Developer",
                        "Contributor",
                        "Maintainer",
                        "Provider",
                        "Support",
                        "Documentor"
                    ],
                    "name": "URGI",
                    "email": "urgi-repet@versailles.inrae.fr",
                    "url": "http://urgi.versailles.inrae.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": "This tool has a \"Numero de depot APP\": FR 001 480007 000 R P 2008 000 31 235"
                }
            ],
            "tool_licence": "CECILL-2.0",
            "documentation": "https://urgi.versailles.inrae.fr/Tools/REPET",
            "maturity": "Legacy",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2025-09-09T08:10:41.737859Z",
            "teams": [
                "URGI"
            ],
            "source_repository": "https://urgi.versailles.inrae.fr/download/repet/"
        },
        {
            "id": 56,
            "name": "CyanoLyase",
            "description": "Manually curated sequence and amino acid motif database gathering all the different phycobilin lyases and related protein sequences available in public databases.",
            "homepage": "http://cyanolyase.genouest.org/",
            "biotoolsID": "cyanolyase",
            "biotoolsCURIE": "biotools:cyanolyase",
            "tool_type": [
                "Database portal"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0623"
            ],
            "primary_publication": [
                "10.1093/nar/gks1091"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "GenOuest",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "GenOuest",
                    "email": "support@genouest.org",
                    "url": "http://www.genouest.org",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://cyanolyase.genouest.org/help",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T16:06:21.263559Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 149,
            "name": "PepPSy",
            "description": "A gene expression-based prioritization system to help investigators to determine in which human tissues they should look for an unseen protein.",
            "homepage": "http://peppsy.genouest.org",
            "biotoolsID": "peppsy",
            "biotoolsCURIE": "biotools:peppsy",
            "tool_type": [
                "Web application"
            ],
            "collection": [
                "Proteomics"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3308",
                "http://edamontology.org/topic_0121"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Olivier Collin",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Lydie Lane",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Thomas Darde",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Paula P. Duek",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "frederic.chalmel@univ-rennes1.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Olivier Sallou",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Maintainer"
                    ],
                    "name": "Frédéric Chalmel",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://peppsy.genouest.org/help",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-25T14:12:40.921423Z",
            "teams": [
                "GenOuest"
            ],
            "source_repository": null
        },
        {
            "id": 147,
            "name": "SortMeRNA",
            "description": "Sequence analysis tool for filtering, mapping and OTU-picking NGS reads.",
            "homepage": "https://bioinfo.cristal.univ-lille.fr/RNA/sortmerna/",
            "biotoolsID": "sortmerna",
            "biotoolsCURIE": "biotools:sortmerna",
            "tool_type": [
                "Web application",
                "Command-line tool"
            ],
            "collection": [
                "ELIXIR Trainer Tools"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3308",
                "http://edamontology.org/topic_3941",
                "http://edamontology.org/topic_3174"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "https://github.com/biocore/sortmerna/issues",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "https://github.com/sortmerna/sortmerna/issues",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://github.com/sortmerna/sortmerna/wiki/User-manual-v4.3.2",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-24T14:49:42.747317Z",
            "teams": [
                "Bilille"
            ],
            "source_repository": null
        },
        {
            "id": 57,
            "name": "AnnotQTL",
            "description": "Tool designed to gather the functional annotation of genes from several institutional databases for a specific chromosomal region.",
            "homepage": "http://annotqtl.genouest.org/",
            "biotoolsID": "annotqtl",
            "biotoolsCURIE": "biotools:annotqtl",
            "tool_type": [
                "Database portal",
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0085"
            ],
            "primary_publication": [
                "10.1093/nar/gkr361"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "GenOuest",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "GenOuest",
                    "email": "support@genouest.org",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://annotqtl.genouest.org/tutorial",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T16:06:26.428724Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 109,
            "name": "RSAT dyad-analysis",
            "description": "Detect over- or under-represented dyads (spaced pairs of k-mers) in sequences.",
            "homepage": "http://teaching.rsat.eu/dyad-analysis_form.cgi",
            "biotoolsID": "RSAT_dyad-analysis",
            "biotoolsCURIE": "biotools:RSAT_dyad-analysis",
            "tool_type": [
                "Web service",
                "Web application",
                "Command-line tool"
            ],
            "collection": [
                "elixir-fr-sdp-2019",
                "FR",
                "Regulatory Sequence Analysis Tools (RSAT)"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0204",
                "http://edamontology.org/topic_3511",
                "http://edamontology.org/topic_0749"
            ],
            "primary_publication": [
                "10.1093/nar/28.8.1808"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [],
                    "name": "UNAM",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": "grid.9486.3",
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Université Libre de Bruxelles",
                    "email": null,
                    "url": "https://www.ulb.be/",
                    "orcidid": null,
                    "gridid": "grid.4989.c",
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact",
                        "Documentor",
                        "Maintainer",
                        "Support",
                        "Developer",
                        "Provider"
                    ],
                    "name": "Jacques van Helden",
                    "email": null,
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0002-8799-8584",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "AFL-3.0",
            "documentation": "https://rsat-doc.github.io/using-RSAT/",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2020-06-16T10:55:27Z",
            "teams": [],
            "source_repository": "https://github.com/rsat-doc"
        },
        {
            "id": 42,
            "name": "ISfinder",
            "description": "It is a dedicated insertion sequence (IS) database which assigns names to individual ISs to maintain a coherent nomenclature, an IS repositaory including >3000 individual ISs from both bacteria and archaea and provides a basis for IS classification. Each IS is indexed in ISfinder with various associated pieces of information and classified into a group or family to provide some insight into its phylogeny.",
            "homepage": "http://www-is.biotoul.fr",
            "biotoolsID": "isfinder",
            "biotoolsCURIE": "biotools:isfinder",
            "tool_type": [
                "Database portal"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3068",
                "http://edamontology.org/topic_0084",
                "http://edamontology.org/topic_0798",
                "http://edamontology.org/topic_0621",
                "http://edamontology.org/topic_3168"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Patricia Siguier",
                    "email": "Patricia.Siguier@ibcg.biotoul.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://www-is.biotoul.fr/general_information.php",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2025-01-24T09:59:36.949842Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 14,
            "name": "UMD-Predictor",
            "description": "A tool that provides a combinatorial approach to identify potential pathogenic variations, that associates the following data: localization within the protein, conservation, biochemical properties of the mutant and wild-type residues, and the potential impact of the variation on mRNA.",
            "homepage": "http://umd-predictor.eu",
            "biotoolsID": "umd-predictor",
            "biotoolsCURIE": "biotools:umd-predictor",
            "tool_type": [
                "Database portal",
                "Web application"
            ],
            "collection": [
                "Developed_RD-Connect",
                "RD-Connect",
                "Rare Disease",
                "ELIXIR-FR"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0199",
                "http://edamontology.org/topic_3574",
                "http://edamontology.org/topic_3512",
                "http://edamontology.org/topic_0634",
                "http://edamontology.org/topic_3325",
                "http://edamontology.org/topic_3063"
            ],
            "primary_publication": [
                "10.1002/humu.22965"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Christophe Beroud",
                    "email": "christophe.beroud@univ-amu.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "David Salgado",
                    "email": "david.salgado@univ-amu.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": null,
            "maturity": "Mature",
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2019-07-24T20:06:47Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 148,
            "name": "Vidjil",
            "description": "Open-source platform for the interactive analysis of high-throughput sequencing data from lymphocyte recombinations. It contains an algorithm gathering reads into clonotypes according to their V(D)J junctions, a web application made of a sample, experiment and patient database and a visualization for the analysis of clonotypes along the time.",
            "homepage": "http://www.vidjil.org/",
            "biotoolsID": "vidjil",
            "biotoolsCURIE": "biotools:vidjil",
            "tool_type": [
                "Web application",
                "Web interface",
                " Command-line"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0080",
                "http://edamontology.org/topic_0804"
            ],
            "primary_publication": [
                "10.1371/journal.pone.0172249"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Support",
                    "email": "contact@vidjil.org",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://github.com/vidjil/vidjil",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2018-12-10T12:58:58Z",
            "teams": [
                "Bilille"
            ],
            "source_repository": null
        },
        {
            "id": 96,
            "name": "GINsim",
            "description": "Computer tool for the modeling and simulation of genetic regulatory networks.",
            "homepage": "http://ginsim.org/",
            "biotoolsID": "ginsim",
            "biotoolsCURIE": "biotools:ginsim",
            "tool_type": [
                "Desktop application"
            ],
            "collection": [
                "elixir-fr-sdp-2019",
                "FR",
                "EBI Training Tools",
                "PerMedCoE"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_2259",
                "http://edamontology.org/topic_0602",
                "http://edamontology.org/topic_0204"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Support",
                        "Developer"
                    ],
                    "name": null,
                    "email": null,
                    "url": "http://ginsim.org/contact",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Project",
                    "note": null
                }
            ],
            "tool_licence": "GPL-3.0",
            "documentation": "http://ginsim.org/documentation",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:09:51.625867Z",
            "teams": [],
            "source_repository": "http://ginsim.org/models_repository"
        },
        {
            "id": 113,
            "name": "ParameciumDB",
            "description": "Online community database for Paramecium species. Contains annotation of genome sequences and features, genome-wide data sets, advanced capabilities to query, retrieve, visualize and compare data.",
            "homepage": "https://paramecium.i2bc.paris-saclay.fr",
            "biotoolsID": "parameciumdb",
            "biotoolsCURIE": "biotools:parameciumdb",
            "tool_type": [
                "Database portal"
            ],
            "collection": [
                "elixir-fr-sdp-2019"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0621",
                "http://edamontology.org/topic_0089",
                "http://edamontology.org/topic_0080",
                "http://edamontology.org/topic_0160",
                "http://edamontology.org/topic_3321"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Contact Form",
                    "email": null,
                    "url": "https://paramecium.i2bc.paris-saclay.fr/cgi/user/contact",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Terms of Use",
                    "email": null,
                    "url": "https://paramecium.i2bc.paris-saclay.fr/parawiki/Terms_of_Use",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                }
            ],
            "tool_licence": "CC-BY-4.0",
            "documentation": null,
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T14:00:30.463079Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 32,
            "name": "Orphanet",
            "description": "Information on rare diseases and orphan drugs.",
            "homepage": "http://www.orpha.net/consor/cgi-bin/index.php",
            "biotoolsID": "orphanet",
            "biotoolsCURIE": "biotools:orphanet",
            "tool_type": [
                "Database portal",
                "Web application"
            ],
            "collection": [
                "Rare Disease",
                "DRCAT"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0154",
                "http://edamontology.org/topic_0634",
                "http://edamontology.org/topic_3325"
            ],
            "primary_publication": [
                "10.1002/humu.22078"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Inserm US14",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "http://www.orpha.net/consor/cgi-bin/Directory_Contact.php?lng=EN",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.orpha.net/consor/cgi-bin/Education_EducationTools.php?stapage=HM_BLOC_HEADER_HELP_SITEMAP&lng=EN",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:58:27.798370Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 162,
            "name": "HCA (hydrophobic cluster analysis)",
            "description": "The HCA method is based on the use of a bidimensional plot, called the HCA plot. The bidimensional plot is associated with an alpha helicoidal pitch (3.6 residue/turn, connectivity distance of 4) which has been shown to offer the best correspondence between clusters and regular secondary structures. Examination of the HCA plot of a protein sequence allow to easily identify globular regions from non globular ones and, in globular regions, to identify secondary structures.",
            "homepage": "http://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py?form=HCA#forms::HCA",
            "biotoolsID": "hca",
            "biotoolsCURIE": "biotools:hca",
            "tool_type": [
                "Web application"
            ],
            "collection": [
                "Proteomics"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0121",
                "http://edamontology.org/topic_3542"
            ],
            "primary_publication": [
                "10.1007/s000180050082"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Isabelle Callebaut",
                    "email": "Isabelle.Callebaut@lmcp.jussieu.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://bioserv.rpbs.univ-paris-diderot.fr/services/HCA/",
            "maturity": null,
            "cost": null,
            "unique_visits": 3200,
            "citations": null,
            "annual_visits": 10000,
            "last_update": "2024-11-24T15:47:21.770746Z",
            "teams": [
                "RPBS"
            ],
            "source_repository": null
        },
        {
            "id": 55,
            "name": "GAG",
            "description": "Generates an NCBI .tbl file of annotations on a genome.",
            "homepage": "https://github.com/genomeannotation/GAG",
            "biotoolsID": "gag",
            "biotoolsCURIE": "biotools:gag",
            "tool_type": [
                "Database portal",
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0622",
                "http://edamontology.org/topic_0077",
                "http://edamontology.org/topic_3673"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Scott M Geib",
                    "email": "scott.geib@ars.usda.gov",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "MIT",
            "documentation": "https://github.com/genomeannotation/GAG",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:31:52.130383Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 95,
            "name": "RSAT oligo-analysis",
            "description": "Compute k-mer frequencies (oligonucleotides or oligopeptides) and various statistics to discover exceptional motifs (over-represented or under-represented). Typical applications include discovery of transcription factor binding motifs, restriction sites in bacterial genomes, RNA termination and polyadenylation signals, detection of motifs associated with replication origins, analysis of oligopeptide frequencies in protein sequences.",
            "homepage": "http://teaching.rsat.eu/oligo-analysis_form.cgi",
            "biotoolsID": "oligo-analysis",
            "biotoolsCURIE": "biotools:oligo-analysis",
            "tool_type": [
                "Web service",
                "Web application",
                "Command-line tool"
            ],
            "collection": [
                "elixir-fr-sdp-2019",
                "FR",
                "Regulatory Sequence Analysis Tools (RSAT)"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0749",
                "http://edamontology.org/topic_3510",
                "http://edamontology.org/topic_0204",
                "http://edamontology.org/topic_3511"
            ],
            "primary_publication": [
                "10.1006/jmbi.1998.1947"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "RSAT",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Maintainer"
                    ],
                    "name": "Jacques van Helden",
                    "email": "Jacques.van-Helden@univ-amu.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0002-8799-8584",
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Jacques van Helden",
                    "email": "Jacques.van-Helden@univ-amu.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0002-8799-8584",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "AFL-3.0",
            "documentation": "http://rsat.eu/",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:59:23.505699Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 145,
            "name": "MacSyFinder",
            "description": "Program to model and detect macromolecular systems, genetic pathways... in protein datasets. In prokaryotes, these systems have often evolutionarily conserved properties: they are made of conserved components, and are encoded in compact loci (conserved genetic architecture). The user models these systems to reflect these conserved features, and to allow their efficient detection.",
            "homepage": "https://github.com/gem-pasteur/macsyfinder",
            "biotoolsID": "macsyfinder",
            "biotoolsCURIE": "biotools:macsyfinder",
            "tool_type": [
                "Web application",
                "Command-line tool"
            ],
            "collection": [
                "GEM Pasteur"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0085"
            ],
            "primary_publication": [
                "10.1371/journal.pone.0110726",
                "10.24072/pcjournal.250"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Bertrand Néron",
                    "email": "bneron@pasteur.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Eduardo Rocha",
                    "email": "eduardo.rocha@pasteur.fr",
                    "url": "https://research.pasteur.fr/fr/member/eduardo-rocha/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Bioinformatics and Biostatistics HUB",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/team/bioinformatics-and-biostatistics-hub/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Division",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Microbial Evolutionary Genomics Unit",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/team/microbial-evolutionary-genomics/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Division",
                    "note": "CNRS - UMR 352"
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Bertrand Néron",
                    "email": "bneron@pasteur.fr",
                    "url": "https://research.pasteur.fr/en/member/bertrand-neron/",
                    "orcidid": "https://orcid.org/0000-0002-0220-0482",
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Eduardo Rocha",
                    "email": "eduardo.rocha@pasteur.fr",
                    "url": "https://research.pasteur.fr/fr/member/eduardo-rocha/",
                    "orcidid": "https://orcid.org/0000-0001-7704-822X",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Bertrand Néron",
                    "email": "bneron@pasteur.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Sophie Abby",
                    "email": null,
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0002-5231-3346",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Institut Pasteur",
                    "email": null,
                    "url": "https://research.pasteur.fr",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "C3BI",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/center/c3bi/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Division",
                    "note": null
                }
            ],
            "tool_licence": "GPL-3.0",
            "documentation": "https://macsyfinder.readthedocs.io/en/latest/",
            "maturity": "Mature",
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-24T13:49:36.708539Z",
            "teams": [
                "Pasteur HUB"
            ],
            "source_repository": "https://github.com/gem-pasteur/macsyfinder"
        },
        {
            "id": 141,
            "name": "DroPNet",
            "description": "DroPNet is a webserver for generating and analyzing Drosophila protein-protein interaction networks. Input data is a list of genes from an experiment such as RNAi screen.",
            "homepage": "http://dropnet.isima.fr",
            "biotoolsID": "dropnet",
            "biotoolsCURIE": "biotools:dropnet",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0128",
                "http://edamontology.org/topic_0602",
                "http://edamontology.org/topic_3957",
                "http://edamontology.org/topic_3523",
                "http://edamontology.org/topic_3678"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "RENAUD Yoan",
                    "email": "renaud@isima.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://dropnet.gred-clermont.fr/DroPNet_project/UserManual.pdf",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 72000,
            "last_update": "2018-12-10T12:58:56Z",
            "teams": [
                "AuBi"
            ],
            "source_repository": null
        }
    ]
}