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

{
    "count": 207,
    "next": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=120&ordering=documentation",
    "previous": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=80&ordering=documentation",
    "results": [
        {
            "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": 184,
            "name": "VAST",
            "description": "Tool for viewing protein structure neighbours.",
            "homepage": "http://www.ncbi.nlm.nih.gov/Structure/VAST/vast.shtml",
            "biotoolsID": "vast",
            "biotoolsCURIE": "biotools:vast",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_2814",
                "http://edamontology.org/topic_0078",
                "http://edamontology.org/topic_0082",
                "http://edamontology.org/topic_0736"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Stephen HBryant",
                    "email": "bryant@ncbi.nlm.nih.gov",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://www.ncbi.nlm.nih.gov/Structure/VAST/vasthelp.html",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2021-04-25T13:21:04Z",
            "teams": [
                "MIGALE"
            ],
            "source_repository": null
        },
        {
            "id": 107,
            "name": "GENOMICUS",
            "description": "Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.",
            "homepage": "http://www.genomicus.biologie.ens.fr/genomicus/",
            "biotoolsID": "GENOMICUS",
            "biotoolsCURIE": "biotools:GENOMICUS",
            "tool_type": [
                "Database portal",
                "Web application"
            ],
            "collection": [
                "elixir-fr-sdp-2019",
                "GENOMICUS"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3943",
                "http://edamontology.org/topic_0194",
                "http://edamontology.org/topic_3299",
                "http://edamontology.org/topic_0621",
                "http://edamontology.org/topic_0623",
                "http://edamontology.org/topic_0797",
                "http://edamontology.org/topic_0622"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/btq079",
                "10.1093/nar/gkab1091"
            ],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [
                        "Support"
                    ],
                    "name": null,
                    "email": "genomicus-web@ens.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Hugues Roest Crollius",
                    "email": "hrc@ens.fr",
                    "url": "http://www.ibens.ens.fr/?rubrique43",
                    "orcidid": "http://orcid.org/0000-0002-8209-173X",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Alexandra Louis",
                    "email": "alouis@biologie.ens.fr",
                    "url": "http://www.ibens.ens.fr/spip.php?article182",
                    "orcidid": "http://orcid.org/0000-0001-7032-5650",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "IBENS - DYOGEN Team",
                    "email": null,
                    "url": "http://www.ibens.ens.fr/?rubrique43&lang=en",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "PB-IBENS",
                    "email": null,
                    "url": "https://www.ibens.ens.fr/?rubrique55",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://www.youtube.com/watch?v=CokUh3fUbGQ",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2023-03-06T14:10:23.175189Z",
            "teams": [
                "PB-IBENS"
            ],
            "source_repository": null
        },
        {
            "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": [
                        "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": [
                        "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": [
                        "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": [
                        "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": [
                        "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": [
                        "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": 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_0128",
                "http://edamontology.org/topic_0602",
                "http://edamontology.org/topic_1775"
            ],
            "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": 173,
            "name": "Tango",
            "description": "A computer algorithm for prediction of aggregating regions in unfolded polypeptide chains. The model used here, is designed to predict cross-beta aggregation in peptides and denatured proteins and consists of a phase-space encompassing the random coil and 4 possible structural states: beta-turn, alpha-helix, beta-sheet aggregation and alpha-helical aggregation.",
            "homepage": "http://tango.crg.es/",
            "biotoolsID": "tango",
            "biotoolsCURIE": "biotools:tango",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0078",
                "http://edamontology.org/topic_3510",
                "http://edamontology.org/topic_0081"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "http://tango.crg.es/support.jsp",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://tango.crg.es/Tango_Handbook.pdf",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2018-12-10T12:58:45Z",
            "teams": [
                "CBiB"
            ],
            "source_repository": null
        },
        {
            "id": 97,
            "name": "Ocean Gene Atlas",
            "description": "The Ocean Gene Atlas service provides data mining access to three complementary data objects: gene sequence catalogs (ENA), sample environmental context (PANGAEA), and gene abundances estimates in samples (computed by mapping sequence reads onto gene catalogs).\nUser queries are composed of either a sequence (nucleic or protein), or a hidden Markov model derived from a multiple sequence alignment. Homologs of the user query in the gene catalogs are identified using standard sequence similarity search tools (eg BLAST or HMMER), and their read based estimated abundance are displayed in interactive maps and plots. A phylogenetic tree is also inferred in order to situate the user query within its context of marine environmental homologs as well as known homologs from reference sequences.",
            "homepage": "http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/",
            "biotoolsID": "Ocean_Gene_Atlas",
            "biotoolsCURIE": "biotools:Ocean_Gene_Atlas",
            "tool_type": [
                "Database portal"
            ],
            "collection": [
                "elixir-fr-sdp-2019"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0610",
                "http://edamontology.org/topic_3387",
                "http://edamontology.org/topic_3174",
                "http://edamontology.org/topic_3941"
            ],
            "primary_publication": [
                "10.1093/nar/gky376"
            ],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "oceangeneatlas@mio.osupytheas.fr",
                    "url": "http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/credits",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "MIO",
                    "email": null,
                    "url": "https://www.mio.osupytheas.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "OCEANOMICS",
                    "email": null,
                    "url": "http://www.oceanomics.eu/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Funding agency",
                    "note": "ANR-11-BTBR-0008"
                }
            ],
            "tool_licence": "Not licensed",
            "documentation": "http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/build/pdf/Ocean-Gene-Atlas_User_Manual.pdf",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:59:34.208631Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 134,
            "name": "Protomata",
            "description": "Motif search and discovery in protein sequences.",
            "homepage": "http://tools.genouest.org/tools/protomata/",
            "biotoolsID": "protomata",
            "biotoolsCURIE": "biotools:protomata",
            "tool_type": [
                "Web application",
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0080"
            ],
            "primary_publication": [
                "10.1007/11564096_50"
            ],
            "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": "CECILL-2.0",
            "documentation": "http://tools.genouest.org/tools/protomata/help",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2018-12-10T12:58:49Z",
            "teams": [
                "GenOuest"
            ],
            "source_repository": null
        },
        {
            "id": 175,
            "name": "Logol",
            "description": "Pattern matching grammar language and a set of tools to search a pattern in a sequence (nucleic or proteic).",
            "homepage": "http://logol.genouest.org",
            "biotoolsID": "logol",
            "biotoolsCURIE": "biotools:logol",
            "tool_type": [
                "Command-line tool",
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0160"
            ],
            "primary_publication": [
                "10.1007/978-3-319-09192-1_4"
            ],
            "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": "CECILL-2.0",
            "documentation": "http://training.genouest.org/claroline/claroline/learnPath/learningPathList.php?cidReset=true&cidReq=LOGOL",
            "maturity": "Emerging",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2018-12-10T12:58:34Z",
            "teams": [
                "GenOuest"
            ],
            "source_repository": null
        },
        {
            "id": 94,
            "name": "VarAFT",
            "description": "VarAFT (Variant Analysis and Filtration Tool) is a standalone and multiplatform tool for annotation and prioritization of potential disease causing genes. With this tool users can annotate variant (VCF) files, combine multiple samples from various individuals, prioritize list of variants by multi-filtering parameters. Additionally, users can perform a coverage analysis and quality check from any BAM file.",
            "homepage": "http://varaft.eu",
            "biotoolsID": "varaft",
            "biotoolsCURIE": "biotools:varaft",
            "tool_type": [
                "Desktop application"
            ],
            "collection": [
                "elixir-fr-sdp-2019",
                "Developed_RD-Connect",
                "RD-Connect",
                "Rare Disease",
                "ELIXIR-FR"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3053",
                "http://edamontology.org/topic_0625",
                "http://edamontology.org/topic_3063",
                "http://edamontology.org/topic_3325"
            ],
            "primary_publication": [
                "10.1093/nar/gky471"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Contact form",
                    "email": null,
                    "url": "http://varaft.eu/#contact",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Jean-Pierre Desvignes",
                    "email": "jean-pierre.desvignes@univ-amu.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "David Salgado",
                    "email": "david.salgado@univ-amu.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                }
            ],
            "tool_licence": "Other",
            "documentation": "http://varaft.eu/download_files/VarAFT_Documentation_V2.pdf",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-04-02T21:35:23.173094Z",
            "teams": [
                "MMG-GBIT"
            ],
            "source_repository": null
        },
        {
            "id": 242,
            "name": "WAVES",
            "description": "WAVES is a web application dedicated to bioinformatic tool integration. It provides an efficient way to implement a service for any bioinformatic software. Such services are automatically made available in three ways: web pages, web forms to include in remote websites, and a RESTful web services API to access remotely from applications. In order to fulfill the service’s computational needs, WAVES can perform computation on various resources and environments, such as Galaxy instances.",
            "homepage": "http://www.atgc-montpellier.fr/waves/",
            "biotoolsID": "WAVES",
            "biotoolsCURIE": "biotools:WAVES",
            "tool_type": [
                "Web API",
                "Web application",
                "Web service",
                "Bioinformatics portal"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0091",
                "http://edamontology.org/topic_3372"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/bty639"
            ],
            "operating_system": [
                "Linux"
            ],
            "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
                },
                {
                    "type_role": [
                        "Developer",
                        "Maintainer"
                    ],
                    "name": "Marc Chakiachvili",
                    "email": "mchakiachvili@ebi.ac.uk",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://waves-core.readthedocs.io/",
            "maturity": "Emerging",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2020-06-16T10:55:27Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 169,
            "name": "BIONJ",
            "description": "This software is well suited for distances estimated from DNA or protein sequences. It has better topological accuracy than NJ in all evolutionary conditions; its superiority becomes important when the substitution rates are high and varying among lineages.",
            "homepage": "http://www.atgc-montpellier.fr/bionj/",
            "biotoolsID": "bionj",
            "biotoolsCURIE": "biotools:bionj",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3299",
                "http://edamontology.org/topic_3293",
                "http://edamontology.org/topic_0084",
                "http://edamontology.org/topic_0654"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Eric RIVALS",
                    "email": "Eric.Rivals@lirmm.fr",
                    "url": "http://www.lirmm.fr/~gascuel/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.atgc-montpellier.fr/bionj/paper.php",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-25T15:15:50.001899Z",
            "teams": [
                "ATGC"
            ],
            "source_repository": null
        },
        {
            "id": 154,
            "name": "CompPhy",
            "description": "Web-based collaborative platform for comparing phylogenies.",
            "homepage": "http://www.atgc-montpellier.fr/compphy/",
            "biotoolsID": "compphy",
            "biotoolsCURIE": "biotools:compphy",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3293",
                "http://edamontology.org/topic_0797",
                "http://edamontology.org/topic_3056"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Contact form",
                    "email": null,
                    "url": "http://www.atgc-montpellier.fr/compphy/?p=contact",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.atgc-montpellier.fr/compphy/?p=userguide",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2018-12-10T12:58:57Z",
            "teams": [
                "ATGC"
            ],
            "source_repository": null
        },
        {
            "id": 167,
            "name": "MPscan",
            "description": "MPscan (multi-pattern scan) is a program for mapping short reads (<30bp) exactly on a set of reference sequences (eg, a genome) without indexing the reference. MPscan performs only exact mapping (no substitution, nor indels), is fast (optimal complexity), and easy to use.",
            "homepage": "http://www.atgc-montpellier.fr/mpscan/",
            "biotoolsID": "mpscan",
            "biotoolsCURIE": "biotools:mpscan",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3308",
                "http://edamontology.org/topic_0622"
            ],
            "primary_publication": [
                "10.1007/978-3-642-04241-6_21"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Vincent Lefort",
                    "email": "Vincent.Lefort@lirmm.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.atgc-montpellier.fr/download/papers/mpscan_manual_2008.pdf",
            "maturity": null,
            "cost": null,
            "unique_visits": 100,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2021-04-22T06:40:43Z",
            "teams": [
                "ATGC"
            ],
            "source_repository": null
        },
        {
            "id": 240,
            "name": "SMS",
            "description": "Phylogenetic model selection using likelihood-based criteria. SMS stends for Smart Model Selection.",
            "homepage": "http://www.atgc-montpellier.fr/sms/",
            "biotoolsID": "PhyMLSMS",
            "biotoolsCURIE": "biotools:PhyMLSMS",
            "tool_type": [
                "Command-line tool",
                "Web application"
            ],
            "collection": [
                "PhyML"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3293",
                "http://edamontology.org/topic_0091",
                "http://edamontology.org/topic_2269"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [],
            "tool_licence": null,
            "documentation": "http://www.atgc-montpellier.fr/download/papers/sms-HowItWorks.pdf",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:59:18.380055Z",
            "teams": [],
            "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": [
                "Command-line tool",
                "Web application"
            ],
            "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": 121,
            "name": "LoRDEC",
            "description": "Program to correct sequencing errors in long reads from 3rd generation sequencing with high error rate, and is especially intended for PacBio reads.",
            "homepage": "http://www.atgc-montpellier.fr/lordec/",
            "biotoolsID": "lordec",
            "biotoolsCURIE": "biotools:lordec",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [
                "elixir-fr-sdp-2019"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0654",
                "http://edamontology.org/topic_3168",
                "http://edamontology.org/topic_3071",
                "http://edamontology.org/topic_0091"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Leena Salmela",
                    "email": "leena.salmela@cs.Helsinki.FI",
                    "url": "https://www.cs.helsinki.fi/u/lmsalmel/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Eric Rivals",
                    "email": "rivals@lirmm.fr",
                    "url": "http://www.lirmm.fr/~rivals/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "LIRMM",
                    "email": null,
                    "url": "http://www.lirmm.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.atgc-montpellier.fr/lordec/",
            "maturity": "Mature",
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T14:01:03.046535Z",
            "teams": [
                "ATGC"
            ],
            "source_repository": null
        },
        {
            "id": 52,
            "name": "Gametogenesis and reproductive tissue expression",
            "description": "High-throughput expression data relevant for germline development and fertility across species.",
            "homepage": "http://www.germonline.org/",
            "biotoolsID": "germonline",
            "biotoolsCURIE": "biotools:germonline",
            "tool_type": [
                "Database portal"
            ],
            "collection": [
                "DRCAT"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0623"
            ],
            "primary_publication": [
                "10.1093/database/baq030"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Documentor"
                    ],
                    "name": "DRCAT",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Project",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "michael.primig@inserm.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.germonline.org/gol_4_userguide.pdf",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:35:55.972418Z",
            "teams": [
                "GenOuest"
            ],
            "source_repository": "http://www.germonline.org/gol_4_userguide.pdf"
        },
        {
            "id": 84,
            "name": "IMGT, the international ImMunoGeneTics information system",
            "description": "IMGT®, the international ImMunoGeneTics information system® is the global reference in immunogenetics and immunoinformatics, created in 1989 by Marie-Paule Lefranc (Université de Montpellier and CNRS). IMGT® is a high-quality integrated knowledge resource specialized in the immunoglobulins (IG) or antibodies, T cell receptors (TR), major histocompatibility (MH) of human and other vertebrate species, and in the immunoglobulin superfamily (IgSF), MH superfamily (MhSF) and related proteins of the immune system (RPI) of vertebrates and invertebrates. IMGT® provides a common access to sequence, genome and structure Immunogenetics data, based on the concepts of IMGT-ONTOLOGY and on the IMGT Scientific chart rules. IMGT® works in close collaboration with EBI (Europe), DDBJ (Japan) and NCBI (USA). IMGT® consists of sequence databases, genome database, structure database, and monoclonal antibodies database, Web resources and interactive tools.",
            "homepage": "http://www.imgt.org/",
            "biotoolsID": "imgt",
            "biotoolsCURIE": "biotools:imgt",
            "tool_type": [
                "Database portal",
                "Bioinformatics portal",
                "Web application",
                "Ontology"
            ],
            "collection": [
                "elixir-fr-sdp-2019",
                "DRCAT"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3948",
                "http://edamontology.org/topic_3930"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Documentor"
                    ],
                    "name": "DRCAT",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Project",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "http://www.imgt.org/IMGTinformation/Contact.php",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.imgt.org/FAQ/",
            "maturity": "Mature",
            "cost": "Free of charge (with restrictions)",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:34:08.902650Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 179,
            "name": "MACSIMS",
            "description": "Multiple alignment-based information management system that combines the advantages of both knowledge-based and ab initio sequence analysis methods.",
            "homepage": "http://www.lbgi.fr/~julie/MACSIMS/",
            "biotoolsID": "macsims",
            "biotoolsCURIE": "biotools:macsims",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0092"
            ],
            "primary_publication": [
                "10.1186/1471-2105-7-318"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "IFB ELIXIR-FR",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Julie Thompson",
                    "email": "julie@igbmc.u-strasbg.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.lbgi.fr/~julie/MACSIMS/Documentation/",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-25T15:53:38.069848Z",
            "teams": [
                "BiGEst"
            ],
            "source_repository": null
        }
    ]
}