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

{
    "count": 233,
    "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": 270,
            "name": "IMGT V-QUEST",
            "description": "IMGT/V-QUEST is the IMGT® tool for nucleotide sequence alignment and analysis of immunoglobulin (IG) or antibody and T cell receptor (TR) variable domains, integrates IMGT/JunctionAnalysis, IMGT/Automat and IMGT/Collier-de-Perles.\nAnalysis is based on the IMGT-ONTOLOGY concepts.",
            "homepage": "http://www.imgt.org/IMGT_vquest",
            "biotoolsID": "imgt_v-quest",
            "biotoolsCURIE": "biotools:imgt_v-quest",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3168",
                "http://edamontology.org/topic_3930",
                "http://edamontology.org/topic_3948",
                "http://edamontology.org/topic_0080"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [],
                    "name": "Patrice Duroux",
                    "email": "patrice.duroux@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Sofia Kossida",
                    "email": "sofia.kossida@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Marie-Paule Lefranc",
                    "email": "Marie-Paule.Lefranc@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Véronique Giudicelli",
                    "email": "veronique.giudicelli@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.imgt.org/IMGT_vquest/user_guide",
            "maturity": "Mature",
            "cost": "Free of charge (with restrictions)",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T13:59:09.724903Z",
            "teams": [
                "IMGT"
            ],
            "source_repository": null
        },
        {
            "id": 272,
            "name": "IMGT-ONTOLOGY",
            "description": "IMGT-ONTOLOGY is the first ontology for immunogenetics and immunoinformatics. It provides a semantic specification of the terms to be used in immunogenetics and immunoinformatics and manages the related knowledge, thus allowing the standardization for immunogenetics data from genome, proteome, genetics, two-dimensional (2D) and three-dimensional (3D) structures. IMGT-ONTOLOGY manages the knowledge through diverse facets relying on seven axioms, \"IDENTIFICATION\", \"CLASSIFICATION\", \"DESCRIPTION\", \"NUMEROTATION\", \"LOCALIZATION\", \"ORIENTATION\" and \"OBTENTION\". These axioms postulate that any object, any process and any relation can be identified, classified, described, numbered, localized and orientated, and the way it is obtained can be characterized.",
            "homepage": "http://www.imgt.org/IMGTindex/ontology.php",
            "biotoolsID": "IMGT-ONTOLOGY",
            "biotoolsCURIE": "biotools:IMGT-ONTOLOGY",
            "tool_type": [
                "Ontology"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3930",
                "http://edamontology.org/topic_3948"
            ],
            "primary_publication": [],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [],
                    "name": "Patrice Duroux",
                    "email": "patrice.duroux@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Sofia Kossida",
                    "email": "sofia.kossida@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Véronique Giudicelli",
                    "email": "veronique.giudicelli@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Marie-Paule Lefranc",
                    "email": "marie-paule.lefranc@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.imgt.org/IMGTindex/ontology.php",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T14:00:20.932052Z",
            "teams": [
                "IMGT"
            ],
            "source_repository": "http://bioportal.bioontology.org/ontologies/IMGT-ONTOLOGY"
        },
        {
            "id": 271,
            "name": "IMGT HighV-QUEST",
            "description": "IMGT/HighV-QUEST is the IMGT® portal for NGS high-throughput nucleotide sequence analysis of immunoglobulins (IG) and T cell receptors (TR) variable domains, integrates IMGT/JunctionAnalysis and IMGT/Automat.\nAnalysis is based on the IMGT-ONTOLOGY concepts.",
            "homepage": "http://www.imgt.org/HighV-QUEST/home.action",
            "biotoolsID": "IMGT_HighV-QUEST",
            "biotoolsCURIE": "biotools:IMGT_HighV-QUEST",
            "tool_type": [
                "Web application",
                "Bioinformatics portal"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3930",
                "http://edamontology.org/topic_3948"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [],
                    "name": "Patrice Duroux",
                    "email": "patrice.duroux@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Sofia Kossida",
                    "email": "sofia.kossida@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Véronique Giudicelli",
                    "email": "veronique.giudicelli@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Marie-Paule Lefranc",
                    "email": "marie-paule.lefranc@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.imgt.org/HighV-QUEST/doc.action",
            "maturity": "Mature",
            "cost": "Free of charge (with restrictions)",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:34:04.967828Z",
            "teams": [
                "IMGT"
            ],
            "source_repository": null
        },
        {
            "id": 273,
            "name": "IMGT GENE-DB",
            "description": "IMGT/GENE-DB is the IMGT® database for immunoglobulin (IG) and T cell receptor (TR) genes and alleles (international nomenclature).\nAnnotation is based on the IMGT-ONTOLOGY concepts.",
            "homepage": "http://www.imgt.org/genedb/",
            "biotoolsID": "IMGT_GENE-DB",
            "biotoolsCURIE": "biotools:IMGT_GENE-DB",
            "tool_type": [
                "Web application",
                "Database portal"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3930",
                "http://edamontology.org/topic_3948",
                "http://edamontology.org/topic_0804"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [],
                    "name": "Patrice Duroux",
                    "email": "patrice.duroux@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Véronique Giudicelli",
                    "email": "veronique.giudicelli@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Marie-Paule Lefranc",
                    "email": "marie-paule.lefranc@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Sofia Kossida",
                    "email": "sophia.kossida@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.imgt.org/genedb/doc",
            "maturity": "Mature",
            "cost": "Free of charge (with restrictions)",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T13:59:46.657117Z",
            "teams": [],
            "source_repository": null
        },
        {
            "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": 275,
            "name": "IMGT 3Dstructure-DB",
            "description": "IMGT/3Dstructure-DB is the IMGT® database for 3D structures of immunoglobulins (IG) or antibodies, T cell receptors (TR), major histocompatibility (MH) proteins, related proteins of the immune system (RPI) and fusion proteins for immune applications (FPIA).\nAnnotation is based on the IMGT-ONTOLOGY concepts.",
            "homepage": "http://www.imgt.org/3Dstructure-DB/",
            "biotoolsID": "imgt_3dstructure",
            "biotoolsCURIE": "biotools:imgt_3dstructure",
            "tool_type": [
                "Database portal"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0154",
                "http://edamontology.org/topic_3930",
                "http://edamontology.org/topic_3948",
                "http://edamontology.org/topic_0621",
                "http://edamontology.org/topic_0804"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Marie-Paule Lefranc",
                    "email": "marie-paule.lefranc@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Patrice Duroux",
                    "email": "patrice.duroux@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Sofia Kossida",
                    "email": "sofia.kossida@igh.cnrs.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://www.imgt.org/3Dstructure-DB/doc/IMGT3DstructureDBHelp.shtml",
            "maturity": "Mature",
            "cost": "Free of charge (with restrictions)",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T14:00:15.256998Z",
            "teams": [
                "IMGT"
            ],
            "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": 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": "Eric Rivals",
                    "email": "rivals@lirmm.fr",
                    "url": "http://www.lirmm.fr/~rivals/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "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": [
                        "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": 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": 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": 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": 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": 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": 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": [
                        "Developer",
                        "Maintainer"
                    ],
                    "name": "Marc Chakiachvili",
                    "email": "mchakiachvili@ebi.ac.uk",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "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": 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": 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": "David Salgado",
                    "email": "david.salgado@univ-amu.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "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
                }
            ],
            "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": 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": 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": 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": [
                        "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"
                },
                {
                    "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
                }
            ],
            "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": 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": 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
        }
    ]
}