GET /api/tool/?format=api&offset=180&ordering=-annual_visits
HTTP 200 OK
Allow: GET, POST, HEAD, OPTIONS
Content-Type: application/json
Vary: Accept

{
    "count": 238,
    "next": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=200&ordering=-annual_visits",
    "previous": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=160&ordering=-annual_visits",
    "results": [
        {
            "id": 171,
            "name": "RNAbrowse",
            "description": "The tool permits sequencing facilities and, even small, bioinformatic teams to give a user-friendly access to RNA-Seq de novo results, helping biologists to analyse and extract meaningful information from their data.",
            "homepage": "https://mulcyber.toulouse.inra.fr/plugins/mediawiki/wiki/ngspipelines/index.php/RNA-seq_denovo",
            "biotoolsID": "rnabrowse",
            "biotoolsCURIE": "biotools:rnabrowse",
            "tool_type": [
                "Web application",
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0219",
                "http://edamontology.org/topic_3170",
                "http://edamontology.org/topic_0099",
                "http://edamontology.org/topic_3168"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "https://mulcyber.toulouse.inra.fr/plugins/mediawiki/wiki/ngspipelines/index.php/RNA-seq_denovo",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://mulcyber.toulouse.inra.fr/plugins/mediawiki/wiki/ngspipelines/index.php/RNA-seq_denovo",
            "maturity": null,
            "cost": null,
            "unique_visits": 2250,
            "citations": null,
            "annual_visits": 4720,
            "last_update": "2018-12-10T12:58:51Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 188,
            "name": "SyntTax",
            "description": "A web server linking synteny to prokaryotic taxonomy.",
            "homepage": "http://archaea.u-psud.fr/SyntTax/",
            "biotoolsID": "synttax",
            "biotoolsCURIE": "biotools:synttax",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0204",
                "http://edamontology.org/topic_0637",
                "http://edamontology.org/topic_3053"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Jacques Oberto",
                    "email": "jacques.oberto@igmors.u-psud.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://archaea.u-psud.fr/SyntTax/SyntTax_Help.html",
            "maturity": null,
            "cost": null,
            "unique_visits": 1707,
            "citations": null,
            "annual_visits": 3829,
            "last_update": "2018-12-10T12:58:58Z",
            "teams": [
                "EBIO"
            ],
            "source_repository": null
        },
        {
            "id": 158,
            "name": "Fpocket",
            "description": "Web server which detects small molecule pockets by relying on the geometric alpha sphere theory. It also tracks pockets during molecular dynamics so to provide insight on pocket dynamics (mdpocket) and transposes mdpocket to the combined analysis of homologous structures (hpocket).",
            "homepage": "https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::fpocket",
            "biotoolsID": "fpocket",
            "biotoolsCURIE": "biotools:fpocket",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0166"
            ],
            "primary_publication": [
                "10.1186/1471-2105-10-168"
            ],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Pierre Tufféry",
                    "email": "pierre.tuffery@univ-paris-diderot.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0003-1033-9895",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Freeware",
            "documentation": "https://bioserv.rpbs.univ-paris-diderot.fr/services/fpocket/",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 960,
            "citations": null,
            "annual_visits": 2470,
            "last_update": "2024-11-24T20:59:53.208420Z",
            "teams": [
                "RPBS"
            ],
            "source_repository": null
        },
        {
            "id": 190,
            "name": "CRISPRFinder",
            "description": "Detects this family of direct repeats found in the DNA of many bacteria and archaea.",
            "homepage": "https://crisprcas.i2bc.paris-saclay.fr/CrisprCasFinder/Index",
            "biotoolsID": "crisprfinder",
            "biotoolsCURIE": "biotools:crisprfinder",
            "tool_type": [
                "Database portal",
                "Web application"
            ],
            "collection": [
                "CRISPR"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_2885",
                "http://edamontology.org/topic_0157",
                "http://edamontology.org/topic_0203",
                "http://edamontology.org/topic_0621",
                "http://edamontology.org/topic_0749"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Marie Touchon",
                    "email": "mtouchon@pasteur.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Unlicense",
            "documentation": null,
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 480,
            "citations": null,
            "annual_visits": 2273,
            "last_update": "2024-11-24T21:05:00.924973Z",
            "teams": [
                "EBIO"
            ],
            "source_repository": null
        },
        {
            "id": 128,
            "name": "Tedna",
            "description": "A lightweight de novo transposable element assembler. It assembles the transposable elements directly from the raw reads.",
            "homepage": "http://urgi.versailles.inra.fr/Tools/Tedna",
            "biotoolsID": "tedna",
            "biotoolsCURIE": "biotools:tedna",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0080",
                "http://edamontology.org/topic_0196",
                "http://edamontology.org/topic_0654"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "urgi-contact@versailles.inra.fr",
                    "url": "https://urgi.versailles.inra.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://urgi.versailles.inra.fr/content/download/2962/25436/file/tedna_doc.pdf",
            "maturity": null,
            "cost": null,
            "unique_visits": 557,
            "citations": null,
            "annual_visits": 1872,
            "last_update": "2018-12-10T12:58:49Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 137,
            "name": "SHAMAN",
            "description": "SHiny application for Metagenomic ANalysis including the normalization, the differential analysis and mutiple visualization. It is based on DESeq2 R package [Anders and Huber 2010] for the analysis of metagenomic data, as suggested in [McMurdie and Holmes 2014, Jonsson2016]. It robustly identifies the differential abundant genera with the Generalized Linear Model implemented in DESeq2 [Love 2014].",
            "homepage": "http://shaman.c3bi.pasteur.fr/",
            "biotoolsID": "shaman",
            "biotoolsCURIE": "biotools:shaman",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3174"
            ],
            "primary_publication": [
                "10.1073/pnas.1523899113"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Hugo Varet",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/member/hugo-varet/",
                    "orcidid": null,
                    "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": [
                        "Developer"
                    ],
                    "name": "Pierre Lechat",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/member/pierre-lechat/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "C3BI",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/center/c3bi/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Division",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Stevenn Volant",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/member/stevenn-volant/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Amine Ghozlane",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/member/amine-ghozlane/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "SHAMAN team",
                    "email": "shaman@pasteur.fr",
                    "url": "https://research.pasteur.fr/en/software/shaman-shiny-application-for-metagenomic-analysis/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "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
                }
            ],
            "tool_licence": "GPL-3.0",
            "documentation": "http://shaman.c3bi.pasteur.fr/",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 742,
            "citations": null,
            "annual_visits": 1855,
            "last_update": "2025-10-23T10:46:59.953305Z",
            "teams": [
                "Pasteur HUB"
            ],
            "source_repository": "https://github.com/aghozlane/shaman"
        },
        {
            "id": 130,
            "name": "MEMHDX",
            "description": "This tool allows users to perform an automated workflow to analyze, validate and visualize large HDX-MS datasets. The input file is the output of DynamX software from Waters. Output files provide a plot of the data, the fitted model for each peptide, a plot of the calculated p -values, and a global visualization of the experiment. User could also obtain an overview of all peptides on the 3D structure.",
            "homepage": "http://memhdx.c3bi.pasteur.fr/",
            "biotoolsID": "memhdx",
            "biotoolsCURIE": "biotools:memhdx",
            "tool_type": [
                "Web application"
            ],
            "collection": [
                "Proteomics"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3520"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/btw420"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Structural Mass Spectrometry and Proteomics",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/team/structural-mass-spectrometry-and-proteomics/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Division",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer",
                        "Primary contact"
                    ],
                    "name": "Véronique Hourdel",
                    "email": "vhourdel@pasteur.fr",
                    "url": "https://research.pasteur.fr/en/member/veronique-hourdel/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Support",
                        "Primary contact"
                    ],
                    "name": "Marie-Agnès Dillies",
                    "email": "marie-agnes.dillies@pasteur.fr",
                    "url": "https://research.pasteur.fr/en/member/marie-agnes-dillies/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Maintainer",
                        "Primary contact"
                    ],
                    "name": "Stevenn Volant",
                    "email": "svolant@pasteur.fr",
                    "url": "https://research.pasteur.fr/en/member/stevenn-volant/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Support",
                        "Primary contact"
                    ],
                    "name": "Sébastien Brier",
                    "email": "sbrier@pasteur.fr",
                    "url": "https://research.pasteur.fr/en/member/sebastien-brier/",
                    "orcidid": null,
                    "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
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "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
                }
            ],
            "tool_licence": null,
            "documentation": "https://www.youtube.com/watch?v=WeCt1sVyHio&feature=youtu.be",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 833,
            "citations": null,
            "annual_visits": 1524,
            "last_update": "2024-11-25T14:14:10.281449Z",
            "teams": [
                "Pasteur HUB"
            ],
            "source_repository": null
        },
        {
            "id": 161,
            "name": "PEP-SiteFinder",
            "description": "PEP-SiteFinder is a web server tool for the blind identification of peptide binding sites on protein surfaces.",
            "homepage": "https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::PEP-SiteFinder",
            "biotoolsID": "pep-sitefinder",
            "biotoolsCURIE": "biotools:pep-sitefinder",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3534",
                "http://edamontology.org/topic_2275"
            ],
            "primary_publication": [
                "10.1093/nar/gku404"
            ],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Pierre Tufféry",
                    "email": "pierre.tuffery@univ-paris-diderot.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0003-1033-9895",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Freeware",
            "documentation": "https://bioserv.rpbs.univ-paris-diderot.fr/services/PEP-SiteFinder",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 347,
            "citations": null,
            "annual_visits": 1482,
            "last_update": "2024-11-24T20:59:55.640056Z",
            "teams": [
                "RPBS"
            ],
            "source_repository": null
        },
        {
            "id": 164,
            "name": "InterEvDock",
            "description": "Ab initio protein docking based on rigid-body sampling followed by consensus scoring using physics-based and statistical potentials, including the InterEvScore function specifically developed to incorporate co-evolutionary information in docking.",
            "homepage": "https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::InterEvDock2",
            "biotoolsID": "interevdock2",
            "biotoolsCURIE": "biotools:interevdock2",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_2275",
                "http://edamontology.org/topic_0080",
                "http://edamontology.org/topic_0128"
            ],
            "primary_publication": [
                "10.1093/nar/gky377",
                "10.1093/nar/gkw340"
            ],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Raphael Guerois",
                    "email": "raphael.guerois@cea.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0001-5294-2858",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Jessica Andreani",
                    "email": "jessica.andreani@cea.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Freeware",
            "documentation": "http://bioserv.rpbs.univ-paris-diderot.fr/services/InterEvDock2/",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 310,
            "citations": null,
            "annual_visits": 1120,
            "last_update": "2024-11-24T21:00:12.284563Z",
            "teams": [
                "RPBS"
            ],
            "source_repository": null
        },
        {
            "id": 159,
            "name": "SABBAC",
            "description": "Tool for the reconstruction of complete protein structures from their alpha-carbon descriptions.",
            "homepage": "https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::SABBAC",
            "biotoolsID": "sabbac",
            "biotoolsCURIE": "biotools:sabbac",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_2275"
            ],
            "primary_publication": [],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Pierre Tufféry",
                    "email": "pierre.tuffery@univ-paris-diderot.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0003-1033-9895",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Freeware",
            "documentation": "https://bioserv.rpbs.univ-paris-diderot.fr/services/SABBAC/",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 130,
            "citations": null,
            "annual_visits": 640,
            "last_update": "2024-11-24T21:00:10.511557Z",
            "teams": [
                "RPBS"
            ],
            "source_repository": null
        },
        {
            "id": 182,
            "name": "S-MART",
            "description": "This tool manages your RNA-Seq and ChIP-seq data.",
            "homepage": "http://urgi.versailles.inra.fr/Tools/S-MART",
            "biotoolsID": "s-mart",
            "biotoolsCURIE": "biotools:s-mart",
            "tool_type": [
                "Suite"
            ],
            "collection": [
                "S-MART"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3170",
                "http://edamontology.org/topic_3169",
                "http://edamontology.org/topic_0092"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Matthias Zytnicki",
                    "email": "matthias.zytnicki@inra.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://urgi.versailles.inra.fr/download/s-mart/doc.pdf",
            "maturity": "Mature",
            "cost": null,
            "unique_visits": 267,
            "citations": null,
            "annual_visits": 474,
            "last_update": "2024-11-25T14:22:04.089851Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 189,
            "name": "Erpin",
            "description": "Easy RNA Profile IdentificatioN takes as input an RNA sequence alignment and secondary structure annotation and will identify a wide variety of known RNA motifs (such as tRNAs, 5S rRNAs, SRP RNA, C/D box snoRNAs, hammerhead motifs, miRNAs and others) in your sequence(s) of interest. Also contains tool for drawing secondary structure of motifs.",
            "homepage": "http://rna.igmors.u-psud.fr/Software/erpin.php",
            "biotoolsID": "erpin",
            "biotoolsCURIE": "biotools:erpin",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0097",
                "http://edamontology.org/topic_0099",
                "http://edamontology.org/topic_3307"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Daniel Gautheret",
                    "email": "daniel.gautheret@u-psud.fr",
                    "url": "http://rna.igmors.u-psud.fr/gautheret/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://rna.igmors.u-psud.fr/Software/erpin.php",
            "maturity": null,
            "cost": null,
            "unique_visits": 350,
            "citations": null,
            "annual_visits": 415,
            "last_update": "2024-11-25T15:02:47.019198Z",
            "teams": [
                "EBIO"
            ],
            "source_repository": null
        },
        {
            "id": 155,
            "name": "HHalign-Kbest",
            "description": "Useful to automatically obtain optimized alignments and models in case of low sequence identity (<35%) between a query and a template protein. It can generate k suboptimal (e.g. top-k scoring) alignments rather than only the optimal one which may contain small to large errors.",
            "homepage": "http://bioserv.rpbs.univ-paris-diderot.fr/services/HHalign-Kbest/",
            "biotoolsID": "hhalign-kbest",
            "biotoolsCURIE": "biotools:hhalign-kbest",
            "tool_type": [
                "Web application",
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0081",
                "http://edamontology.org/topic_2814",
                "http://edamontology.org/topic_0736"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Raphael Guerois",
                    "email": null,
                    "url": "https://scholar.google.com/citations?user=M7Ln2zQAAAAJ&hl=es",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://bioserv.rpbs.univ-paris-diderot.fr/services/HHalign-Kbest/#faq",
            "maturity": null,
            "cost": null,
            "unique_visits": 70,
            "citations": null,
            "annual_visits": 260,
            "last_update": "2024-11-25T14:00:57.608636Z",
            "teams": [
                "RPBS"
            ],
            "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_0121",
                "http://edamontology.org/topic_3308"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "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
                },
                {
                    "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
                }
            ],
            "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": 127,
            "name": "DiNAMO",
            "description": "The DiNAMO software implements an exhaustive algorithm to detect over-represented IUPAC motifs in a set of DNA sequences.",
            "homepage": "https://github.com/bonsai-team/DiNAMO",
            "biotoolsID": "dinamo",
            "biotoolsCURIE": "biotools:dinamo",
            "tool_type": [
                "Command-line tool",
                "Library"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3169",
                "http://edamontology.org/topic_0160",
                "http://edamontology.org/topic_3168"
            ],
            "primary_publication": [
                "10.1186/s12859-018-2215-1"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Chadi Saad",
                    "email": "chadi.saad@univ-lille1.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "GPL-3.0",
            "documentation": "https://github.com/bonsai-team/DiNAMO/blob/master/README.md",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-25T14:31:44.889611Z",
            "teams": [
                "Bilille"
            ],
            "source_repository": null
        },
        {
            "id": 157,
            "name": "OCG",
            "description": "Creates an overlapping class system from an unweighted simple graph G = (V,E).OCG is essentially a hierarchical ascending algorithm. By default, it will fuse the initial classes until further fusions do not increase the modularity but other options are available.",
            "homepage": "http://tagc.univ-mrs.fr/tagc/index.php/software/17",
            "biotoolsID": "ocg",
            "biotoolsCURIE": "biotools:ocg",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_1775",
                "http://edamontology.org/topic_0128",
                "http://edamontology.org/topic_0602"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Brun C",
                    "email": "brun@tagc.univ-mrs.fr",
                    "url": "http://tagc.univ-mrs.fr/tagc/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://tagc.univ-mrs.fr/tagc/index.php/software/17",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-25T16:02:04.280293Z",
            "teams": [
                "TAGC-BU"
            ],
            "source_repository": null
        },
        {
            "id": 138,
            "name": "SARTools",
            "description": "R package dedicated to the differential analysis of RNA-seq data. It provides tools to generate descriptive and diagnostic graphs, to run the differential analysis with one of the well known DESeq2 or edgeR packages and to export the results into easily readable tab-delimited files. It also facilitates the generation of a HTML report which displays all the figures produced, explains the statistical methods and gives the results of the differential analysis.",
            "homepage": "https://github.com/PF2-pasteur-fr/SARTools",
            "biotoolsID": "sartools",
            "biotoolsCURIE": "biotools:sartools",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [
                "SARTools"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3308",
                "http://edamontology.org/topic_2269"
            ],
            "primary_publication": [
                "10.1371/journal.pone.0157022"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Support",
                        "Primary contact"
                    ],
                    "name": "Jean-Yves Coppée",
                    "email": "jean-yves.coppee@pasteur.fr",
                    "url": "https://research.pasteur.fr/fr/member/jean-yves-coppee/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer",
                        "Primary contact"
                    ],
                    "name": "Marie-Agnès Dillies",
                    "email": "marie-agnes.dillies@pasteur.fr",
                    "url": "https://research.pasteur.fr/fr/member/marie-agnes-dillies/",
                    "orcidid": null,
                    "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
                },
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "France Génomique",
                    "email": null,
                    "url": "https://www.france-genomique.org",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Funding agency",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer",
                        "Primary contact"
                    ],
                    "name": "Hugo Varet",
                    "email": "hugo.varet@pasteur.fr",
                    "url": "https://research.pasteur.fr/fr/member/hugo-varet/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "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
                }
            ],
            "tool_licence": "GPL-2.0",
            "documentation": "https://github.com/PF2-pasteur-fr/SARTools",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2021-04-17T15:12:05Z",
            "teams": [
                "Pasteur HUB"
            ],
            "source_repository": "https://github.com/PF2-pasteur-fr/SARTools"
        },
        {
            "id": 156,
            "name": "ORDO",
            "description": "The Orphanet Rare Disease Ontology (ORDO) - structured vocabulary for rare diseases, capturing relationships between diseases, genes and other relevant features. It integrates a classification of rare diseases, relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) and classifications (ICD10).",
            "homepage": "http://www.ebi.ac.uk/ols/ontologies/ordo",
            "biotoolsID": "ordo",
            "biotoolsCURIE": "biotools:ordo",
            "tool_type": [
                "Database portal",
                "Web application",
                "Ontology"
            ],
            "collection": [
                "Rare Disease",
                "RD-connect"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3572",
                "http://edamontology.org/topic_3307",
                "http://edamontology.org/topic_0634",
                "http://edamontology.org/topic_3325",
                "http://edamontology.org/topic_0089"
            ],
            "primary_publication": [],
            "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": "Contact Form",
                    "email": null,
                    "url": "https://www.ebi.ac.uk/support/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "ols-submission@ebi.ac.uk",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Apache-2.0",
            "documentation": "https://www.ebi.ac.uk/ols/docs/index",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2020-09-16T07:06:49Z",
            "teams": [
                "Orphanet"
            ],
            "source_repository": null
        },
        {
            "id": 168,
            "name": "FastME",
            "description": "Distance algorithms to infer phylogenies. It's based on balanced minimum evolution, which is the very principle of NJ. It includes Nearest Neighbor Interchange (NNI) and also Subtree Pruning and Regrafting (SPR), while remaining as fast as NJ and providing a number of facilities: distance estimation for DNA and proteins with various models and options, bootstrapping, and parallel computations.",
            "homepage": "http://www.atgc-montpellier.fr/fastme/",
            "biotoolsID": "fastme",
            "biotoolsCURIE": "biotools:fastme",
            "tool_type": [
                "Web application",
                "Command-line tool"
            ],
            "collection": [
                "galaxyPasteur",
                "FastME"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3293",
                "http://edamontology.org/topic_0091"
            ],
            "primary_publication": [
                "10.1093/molbev/msv150"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "LIRMM",
                    "email": null,
                    "url": "http://www.lirmm.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact",
                        "Contributor"
                    ],
                    "name": "Vincent Lefort",
                    "email": "vincent.lefort@lirmm.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "GPL-3.0",
            "documentation": "http://www.atgc-montpellier.fr/fastme/usersguide.php",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 300,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-24T20:59:19.988087Z",
            "teams": [
                "ATGC"
            ],
            "source_repository": null
        },
        {
            "id": 176,
            "name": "Galaxy",
            "description": "Open, web-based platform for data intensive biomedical research. Whether on the free public server or your own instance, you can perform, reproduce, and share complete analyses.",
            "homepage": "https://galaxyproject.org/",
            "biotoolsID": "galaxy",
            "biotoolsCURIE": "biotools:galaxy",
            "tool_type": [
                "Bioinformatics portal",
                "Web API",
                "Web application",
                "Workflow"
            ],
            "collection": [
                "Animal and Crop Genomics",
                "Galaxy"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0085",
                "http://edamontology.org/topic_3673",
                "http://edamontology.org/topic_0622",
                "http://edamontology.org/topic_0797",
                "http://edamontology.org/topic_0196"
            ],
            "primary_publication": [
                "10.1093/nar/gkw343",
                "10.1093/nar/gkac247"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Contributor"
                    ],
                    "name": "Galaxy Community",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Consortium",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Galaxy support",
                    "email": null,
                    "url": "https://biostar.usegalaxy.org/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "AFL-3.0",
            "documentation": "https://usegalaxy.org/api/docs",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 400,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-24T14:46:57.861339Z",
            "teams": [
                "South Green"
            ],
            "source_repository": "https://github.com/galaxyproject/galaxy"
        }
    ]
}