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

{
    "count": 211,
    "next": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=20&ordering=scientific_topics",
    "previous": null,
    "results": [
        {
            "id": 122,
            "name": "microSysMics",
            "description": "This workflow provides an automated microbiome data analysis, starting with sequenced taxonomic markers (such as 16SrRNA) and using the standard QIIME2 toolbox to produce an abundance table and preliminary diversity, phylogeny and taxonomy analysis.",
            "homepage": "https://gitlab.univ-nantes.fr/bird_pipeline_registry/microSysMics",
            "biotoolsID": "microSysMics",
            "biotoolsCURIE": "biotools:microSysMics",
            "tool_type": [
                "Workflow"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3697"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "BiRD bioinformatics facility",
                    "email": "pf-bird@univ-nantes.fr",
                    "url": "http://pf-bird.univ-nantes.fr",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Division",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "LS2N",
                    "email": null,
                    "url": "http://www.ls2n.fr",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Erwan Delage",
                    "email": "erwan.delage@univ-nantes.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Audrey Bihouée",
                    "email": "audrey.bihouee@univ-nantes.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0002-8689-2083",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "TENS",
                    "email": null,
                    "url": "https://www.inserm-tens.com/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Maintainer",
                        "Contributor"
                    ],
                    "name": "Damien Vintache",
                    "email": "Damien.Vintache@univ-nantes.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Samuel Chaffron",
                    "email": "samuel.chaffron@univ-nantes.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0001-5903-617X",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Michel Neunlist",
                    "email": "michel.neunlist@univ-nantes.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0003-1892-5071",
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "BiRD",
                    "email": "pf-bird@univ-nantes.fr",
                    "url": "http://pf-bird.univ-nantes.fr",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Division",
                    "note": null
                }
            ],
            "tool_licence": "Other",
            "documentation": null,
            "maturity": "Emerging",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2023-09-19T15:06:56.878425Z",
            "teams": [
                "BiRD"
            ],
            "source_repository": null
        },
        {
            "id": 249,
            "name": "FROGS",
            "description": "The user-friendly and Galaxy-supported pipeline FROGS analyses large sets of DNA amplicons sequences accurately and rapidly, essential for microbe community studies.",
            "homepage": "http://frogs.toulouse.inra.fr/",
            "biotoolsID": "frogs",
            "biotoolsCURIE": "biotools:frogs",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [
                "FROGS"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3174",
                "http://edamontology.org/topic_3697",
                "http://edamontology.org/topic_0637",
                "http://edamontology.org/topic_3299",
                "http://edamontology.org/topic_3168"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/btx791",
                "10.1093/bib/bbab318"
            ],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Géraldine Pascal",
                    "email": "geraldine.pascal@inra.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Géraldine Pascal",
                    "email": "geraldine.pascal@inrae.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://github.com/geraldinepascal/FROGS",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:07:18.846597Z",
            "teams": [],
            "source_repository": "https://github.com/geraldinepascal/FROGS"
        },
        {
            "id": 263,
            "name": "TrEMOLO",
            "description": "Accurate transposable element allele frequency estimation using long-read sequencing data combining assembly and mapping-based approaches.",
            "homepage": "https://github.com/DrosophilaGenomeEvolution/TrEMOLO",
            "biotoolsID": "tremolo",
            "biotoolsCURIE": "biotools:tremolo",
            "tool_type": [
                "Workflow",
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0798",
                "http://edamontology.org/topic_0196",
                "http://edamontology.org/topic_3168",
                "http://edamontology.org/topic_3175"
            ],
            "primary_publication": [
                "10.1186/s13059-023-02911-2"
            ],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [],
                    "name": "Anna-Sophie Fiston-Lavier",
                    "email": "anna-sophie.fiston-lavier@umontpellier.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0002-7306-6532",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [],
                    "name": "Séverine Chambeyron",
                    "email": "severine.chambeyron@igh.cnrs.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0003-2775-6556",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": null,
            "maturity": null,
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T14:41:13.039486Z",
            "teams": [
                "South Green"
            ],
            "source_repository": "https://dataverse.ird.fr/dataverse/tremolo_data"
        },
        {
            "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": 125,
            "name": "Gigwa",
            "description": "The Gigwa application, which stands for “Genotype Investigator for Genome-Wide Analyses”, provides an easy and intuitive way to explore large amounts of genotyping data by filtering it not only on the basis of variant features, including functional annotations, but also matching genotype patterns. It is a fairly lightweight, web-based, platform-independent solution that may be deployed on a workstation or as a data portal. It allows to feed a MongoDB database with VCF, PLINK or HapMap files containing up to tens of billions of genotypes, and provides a user-friendly interface to filter data in real time. Gigwa provides the means to export filtered data into several popular formats and features connectivity not only with online genomic tools, but also with standalone software such as FlapJack or IGV. Additionnally, Gigwa-hosted datasets are interoperable via two standard REST APIs: GA4GH and BrAPI.",
            "homepage": "http://www.southgreen.fr/content/gigwa",
            "biotoolsID": "Gigwa",
            "biotoolsCURIE": "biotools:Gigwa",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0625",
                "http://edamontology.org/topic_2885",
                "http://edamontology.org/topic_3071"
            ],
            "primary_publication": [
                "10.1093/GIGASCIENCE/GIZ051",
                "10.1186/s13742-016-0131-8"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Guilhem Sempéré",
                    "email": "guilhem.sempere@cirad.fr",
                    "url": null,
                    "orcidid": "https://orcid.org/0000-0001-7429-2091",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "gigwa@cirad.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                }
            ],
            "tool_licence": "AGPL-3.0",
            "documentation": "http://gigwa.southgreen.fr/gigwa/docs/gigwa_docs.html",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2020-09-14T08:25:17Z",
            "teams": [
                "South Green"
            ],
            "source_repository": "https://github.com/SouthGreenPlatform/Gigwa2"
        },
        {
            "id": 190,
            "name": "CRISPRFinder",
            "description": "Detects this family of direct repeats found in the DNA of many bacteria and archaea.",
            "homepage": "https://crisprcas.i2bc.paris-saclay.fr/CrisprCasFinder/Index",
            "biotoolsID": "crisprfinder",
            "biotoolsCURIE": "biotools:crisprfinder",
            "tool_type": [
                "Web application",
                "Database portal"
            ],
            "collection": [
                "CRISPR"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0621",
                "http://edamontology.org/topic_0749",
                "http://edamontology.org/topic_0157",
                "http://edamontology.org/topic_2885",
                "http://edamontology.org/topic_0203"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Marie Touchon",
                    "email": "mtouchon@pasteur.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Unlicense",
            "documentation": null,
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 480,
            "citations": null,
            "annual_visits": 2273,
            "last_update": "2024-11-24T21:05:00.924973Z",
            "teams": [
                "EBIO"
            ],
            "source_repository": null
        },
        {
            "id": 205,
            "name": "DiscoSNP",
            "description": "This software is designed for discovering Single Nucleotide Polymorphism (SNP) from raw set(s) of reads obtained with Next Generation Sequencers (NGS).",
            "homepage": "https://colibread.inria.fr/software/discosnp/",
            "biotoolsID": "discosnp",
            "biotoolsCURIE": "biotools:discosnp",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [
                "GATB"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_2885",
                "http://edamontology.org/topic_3168",
                "http://edamontology.org/topic_3053",
                "http://edamontology.org/topic_0199"
            ],
            "primary_publication": [
                "10.1093/nar/gku1187"
            ],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "GenOuest",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Pierre Peterlongo",
                    "email": "pierre.peterlongo@inria.fr",
                    "url": "https://colibread.inria.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://colibread.inria.fr/software/discosnp/",
            "maturity": "Emerging",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T14:25:58.458039Z",
            "teams": [
                "GenOuest"
            ],
            "source_repository": null
        },
        {
            "id": 178,
            "name": "NGS-QC Generator",
            "description": "Comparative analysis between ChIP-seq and other enrichment-related NGS datasets requires prior characterization of their degree of technical similarity. The Galaxy tool NGS-QC Generator is a computational-based approach that infers quality indicators from the distribution of sequenced reads associated to a particular NGS profile. Such information is then used for comparative purposes and for defining strategies to improve the quality of sample-derived datasets.",
            "homepage": "http://www.ngs-qc.org/",
            "biotoolsID": "ngs-qc_generator",
            "biotoolsCURIE": "biotools:ngs-qc_generator",
            "tool_type": [
                "Web application"
            ],
            "collection": [
                "Animal and Crop Genomics"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3572",
                "http://edamontology.org/topic_3169"
            ],
            "primary_publication": [
                "10.1007/978-1-4939-3578-9_13"
            ],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "contact@ngs-qc.org",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "GPL-2.0",
            "documentation": "http://www.ngs-qc.org/tutorial.php",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-25T14:05:15.865852Z",
            "teams": [
                "BiGEst"
            ],
            "source_repository": null
        },
        {
            "id": 156,
            "name": "ORDO",
            "description": "The Orphanet Rare Disease Ontology (ORDO) - structured vocabulary for rare diseases, capturing relationships between diseases, genes and other relevant features. It integrates a classification of rare diseases, relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) and classifications (ICD10).",
            "homepage": "http://www.ebi.ac.uk/ols/ontologies/ordo",
            "biotoolsID": "ordo",
            "biotoolsCURIE": "biotools:ordo",
            "tool_type": [
                "Ontology",
                "Web application",
                "Database portal"
            ],
            "collection": [
                "RD-connect",
                "Rare Disease"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_0089",
                "http://edamontology.org/topic_0634",
                "http://edamontology.org/topic_3307",
                "http://edamontology.org/topic_3572",
                "http://edamontology.org/topic_3325"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Contact Form",
                    "email": null,
                    "url": "https://www.ebi.ac.uk/support/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Provider"
                    ],
                    "name": "Inserm US14",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "ols-submission@ebi.ac.uk",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "Apache-2.0",
            "documentation": "https://www.ebi.ac.uk/ols/docs/index",
            "maturity": "Mature",
            "cost": "Free of charge",
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2020-09-16T07:06:49Z",
            "teams": [
                "Orphanet"
            ],
            "source_repository": null
        },
        {
            "id": 187,
            "name": "Nebula",
            "description": "Web service powered by Galaxy which allows users (Bioinformaticians as far as Biologists) to analyze their ChIP-seq data.",
            "homepage": "https://nebula.curie.fr/",
            "biotoolsID": "nebula",
            "biotoolsCURIE": "biotools:nebula",
            "tool_type": [
                "Web application"
            ],
            "collection": [
                "Nebula"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3365",
                "http://edamontology.org/topic_3169",
                "http://edamontology.org/topic_3125"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": "galaxy.contact@curie.fr",
                    "url": "http://bioinfo-out.curie.fr/",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://nebula.curie.fr/static/nebula_tutorial.pdf",
            "maturity": null,
            "cost": null,
            "unique_visits": 7384,
            "citations": null,
            "annual_visits": 2815653,
            "last_update": "2024-11-25T14:22:06.393280Z",
            "teams": [
                "Curie Bioinfo"
            ],
            "source_repository": null
        },
        {
            "id": 196,
            "name": "Viral Host Range database",
            "description": "The Viral Host Range database represents a unique resource for the community to rapidly find, document analyze and disseminate data related to the range of hosts that a virus can infect. Over the years, countless host range experiments have been performed in many laboratories. However, these data are not readily available to the community and are therefore underexploited.\n\nThe VHRdb is an online resource that centralizes experimental data related to the host range of viruses. While it originates from bacteriophages and bacteria interaction studies, its design is compatible with viruses infecting all living forms. Users can browse publicly available data to find which host is infected by a virus, and vice versa. Users can also upload their own data while keeping it private or making it public, analyze results across independent sets of data, generate and visualize outputs. Data implemented in the VHRdb are linked to users and, if available, to publications and sequence identifiers.",
            "homepage": "https://viralhostrangedb.pasteur.cloud/",
            "biotoolsID": "VHRdb",
            "biotoolsCURIE": "biotools:VHRdb",
            "tool_type": [
                "Database portal",
                "Web API",
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3489",
                "http://edamontology.org/topic_0781"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/btab070"
            ],
            "operating_system": [
                "Mac",
                "Windows",
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Contributor",
                        "Developer"
                    ],
                    "name": "LAMY-BESNIER Quentin",
                    "email": null,
                    "url": "https://research.pasteur.fr/fr/member/fr-quentin-lamy-besnier/",
                    "orcidid": "https://orcid.org/0000-0002-7141-6340",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Documentor"
                    ],
                    "name": "MÉNAGER Hervé",
                    "email": null,
                    "url": "https://research.pasteur.fr/fr/member/herve-menager/",
                    "orcidid": "https://orcid.org/0000-0002-7552-1009",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Maintainer"
                    ],
                    "name": "Institut Pasteur",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": "grid.428999.7",
                    "typeEntity": "Institute",
                    "note": null
                },
                {
                    "type_role": [
                        "Maintainer",
                        "Developer"
                    ],
                    "name": "Bryan Brancotte",
                    "email": null,
                    "url": "https://research.pasteur.fr/en/member/bryan-brancotte",
                    "orcidid": "https://orcid.org/0000-0001-8669-5525",
                    "gridid": null,
                    "typeEntity": null,
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "DEBARBIEUX Laurent",
                    "email": null,
                    "url": "https://research.pasteur.fr/fr/member/laurent-debarbieux/",
                    "orcidid": "https://orcid.org/0000-0001-6875-5758",
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://hub.pages.pasteur.fr/viralhostrangedb/",
            "maturity": "Mature",
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2022-06-24T08:58:13.476714Z",
            "teams": [
                "Pasteur HUB"
            ],
            "source_repository": "https://gitlab.pasteur.fr/hub/viralhostrangedb/"
        },
        {
            "id": 249,
            "name": "FROGS",
            "description": "The user-friendly and Galaxy-supported pipeline FROGS analyses large sets of DNA amplicons sequences accurately and rapidly, essential for microbe community studies.",
            "homepage": "http://frogs.toulouse.inra.fr/",
            "biotoolsID": "frogs",
            "biotoolsCURIE": "biotools:frogs",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [
                "FROGS"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3174",
                "http://edamontology.org/topic_3697",
                "http://edamontology.org/topic_0637",
                "http://edamontology.org/topic_3299",
                "http://edamontology.org/topic_3168"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/btx791",
                "10.1093/bib/bbab318"
            ],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Géraldine Pascal",
                    "email": "geraldine.pascal@inra.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Géraldine Pascal",
                    "email": "geraldine.pascal@inrae.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://github.com/geraldinepascal/FROGS",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:07:18.846597Z",
            "teams": [],
            "source_repository": "https://github.com/geraldinepascal/FROGS"
        },
        {
            "id": 243,
            "name": "RAPPAS",
            "description": "RAPPAS stands for Rapid Alignment-free Phylogenetic Placement via Ancestral Sequences. It uses an alignment-free approach for phylogenetic placement, thus removing the hurdle of query sequence alignment.",
            "homepage": "http://www.atgc-montpellier.fr/RAPPAS/",
            "biotoolsID": "RAPPAS",
            "biotoolsCURIE": "biotools:RAPPAS",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0091",
                "http://edamontology.org/topic_0637",
                "http://edamontology.org/topic_3293",
                "http://edamontology.org/topic_3174"
            ],
            "primary_publication": [
                "10.1093/bioinformatics/btz068"
            ],
            "operating_system": [
                "Linux"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Developer"
                    ],
                    "name": "Benjamin Linard",
                    "email": null,
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://github.com/blinard-BIOINFO/RAPPAS",
            "maturity": "Emerging",
            "cost": "Free of charge",
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:59:27.880847Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 188,
            "name": "SyntTax",
            "description": "A web server linking synteny to prokaryotic taxonomy.",
            "homepage": "http://archaea.u-psud.fr/SyntTax/",
            "biotoolsID": "synttax",
            "biotoolsCURIE": "biotools:synttax",
            "tool_type": [
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0637",
                "http://edamontology.org/topic_0204",
                "http://edamontology.org/topic_3053"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Jacques Oberto",
                    "email": "jacques.oberto@igmors.u-psud.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://archaea.u-psud.fr/SyntTax/SyntTax_Help.html",
            "maturity": null,
            "cost": null,
            "unique_visits": 1707,
            "citations": null,
            "annual_visits": 3829,
            "last_update": "2018-12-10T12:58:58Z",
            "teams": [
                "EBIO"
            ],
            "source_repository": null
        },
        {
            "id": 75,
            "name": "NAPP",
            "description": "Nucleic Acid Phylogenetic Profile Database: classifies coding and non-coding sequences in a genome according to their pattern of conservation across other genomes.",
            "homepage": "http://napp.u-psud.fr/",
            "biotoolsID": "napp",
            "biotoolsCURIE": "biotools:napp",
            "tool_type": [
                "Database portal"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0659",
                "http://edamontology.org/topic_0082",
                "http://edamontology.org/topic_3511",
                "http://edamontology.org/topic_0077",
                "http://edamontology.org/topic_0097"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "NAPP Support",
                    "email": "napp.biologie@u-psud.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://rna.igmors.u-psud.fr/NAPP/Help.php",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-25T15:05:27.630660Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 55,
            "name": "GAG",
            "description": "Generates an NCBI .tbl file of annotations on a genome.",
            "homepage": "https://github.com/genomeannotation/GAG",
            "biotoolsID": "gag",
            "biotoolsCURIE": "biotools:gag",
            "tool_type": [
                "Database portal",
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0622",
                "http://edamontology.org/topic_0077",
                "http://edamontology.org/topic_3673"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Scott M Geib",
                    "email": "scott.geib@ars.usda.gov",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "MIT",
            "documentation": "https://github.com/genomeannotation/GAG",
            "maturity": null,
            "cost": null,
            "unique_visits": null,
            "citations": null,
            "annual_visits": null,
            "last_update": "2024-11-24T20:31:52.130383Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 136,
            "name": "AutoGRAPH",
            "description": "Integrated web server for multi-species comparative genomic analysis. It is designed for constructing and visualizing synteny maps between two or three species, determination and display of macrosynteny and microsynteny relationships among species, and for highlighting evolutionary breakpoints.",
            "homepage": "http://autograph.genouest.org/",
            "biotoolsID": "autograph",
            "biotoolsCURIE": "biotools:autograph",
            "tool_type": [
                "Web service"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0102",
                "http://edamontology.org/topic_0654",
                "http://edamontology.org/topic_0797"
            ],
            "primary_publication": [],
            "operating_system": [],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Derrien T",
                    "email": "toma.derrien@gmail.com",
                    "url": "http://www-recomgen.univ-rennes1.fr/doggy.html",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "http://autograph.genouest.org/Tutorial.php",
            "maturity": null,
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2024-11-25T15:04:29.788401Z",
            "teams": [
                "GenOuest"
            ],
            "source_repository": null
        },
        {
            "id": 166,
            "name": "CRAC",
            "description": "CRAC is a mapping software specialized for RNA-Seq data. It detects mutations, indels, splice or fusion junctions in each single read.",
            "homepage": "http://crac.gforge.inria.fr",
            "biotoolsID": "crac",
            "biotoolsCURIE": "biotools:crac",
            "tool_type": [
                "Command-line tool"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_3320",
                "http://edamontology.org/topic_0114",
                "http://edamontology.org/topic_3170"
            ],
            "primary_publication": [
                "10.1186/gb-2013-14-3-r30"
            ],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "For question regarding the software",
                    "email": "crac-bugs@lists.gforge.inria.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                },
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "For questions, comments, remarks on the algorithm or the article",
                    "email": "crac-article@lists.gforge.inria.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": "CECILL-2.0",
            "documentation": "http://crac.gforge.inria.fr/documentation/",
            "maturity": "Mature",
            "cost": null,
            "unique_visits": 0,
            "citations": null,
            "annual_visits": 0,
            "last_update": "2018-12-10T12:58:59Z",
            "teams": [
                "Bilille",
                "ATGC"
            ],
            "source_repository": null
        },
        {
            "id": 171,
            "name": "RNAbrowse",
            "description": "The tool permits sequencing facilities and, even small, bioinformatic teams to give a user-friendly access to RNA-Seq de novo results, helping biologists to analyse and extract meaningful information from their data.",
            "homepage": "https://mulcyber.toulouse.inra.fr/plugins/mediawiki/wiki/ngspipelines/index.php/RNA-seq_denovo",
            "biotoolsID": "rnabrowse",
            "biotoolsCURIE": "biotools:rnabrowse",
            "tool_type": [
                "Command-line tool",
                "Web application"
            ],
            "collection": [],
            "scientific_topics": [
                "http://edamontology.org/topic_0099",
                "http://edamontology.org/topic_3170",
                "http://edamontology.org/topic_3168",
                "http://edamontology.org/topic_0219"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": null,
                    "email": null,
                    "url": "https://mulcyber.toulouse.inra.fr/plugins/mediawiki/wiki/ngspipelines/index.php/RNA-seq_denovo",
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://mulcyber.toulouse.inra.fr/plugins/mediawiki/wiki/ngspipelines/index.php/RNA-seq_denovo",
            "maturity": null,
            "cost": null,
            "unique_visits": 2250,
            "citations": null,
            "annual_visits": 4720,
            "last_update": "2018-12-10T12:58:51Z",
            "teams": [],
            "source_repository": null
        },
        {
            "id": 182,
            "name": "S-MART",
            "description": "This tool manages your RNA-Seq and ChIP-seq data.",
            "homepage": "http://urgi.versailles.inra.fr/Tools/S-MART",
            "biotoolsID": "s-mart",
            "biotoolsCURIE": "biotools:s-mart",
            "tool_type": [
                "Suite"
            ],
            "collection": [
                "S-MART"
            ],
            "scientific_topics": [
                "http://edamontology.org/topic_3170",
                "http://edamontology.org/topic_3169",
                "http://edamontology.org/topic_0092"
            ],
            "primary_publication": [],
            "operating_system": [
                "Linux",
                "Windows",
                "Mac"
            ],
            "tool_credit": [
                {
                    "type_role": [
                        "Primary contact"
                    ],
                    "name": "Matthias Zytnicki",
                    "email": "matthias.zytnicki@inra.fr",
                    "url": null,
                    "orcidid": null,
                    "gridid": null,
                    "typeEntity": "Person",
                    "note": null
                }
            ],
            "tool_licence": null,
            "documentation": "https://urgi.versailles.inra.fr/download/s-mart/doc.pdf",
            "maturity": "Mature",
            "cost": null,
            "unique_visits": 267,
            "citations": null,
            "annual_visits": 474,
            "last_update": "2024-11-25T14:22:04.089851Z",
            "teams": [],
            "source_repository": null
        }
    ]
}