HTTP 200 OK
Allow: GET, POST, HEAD, OPTIONS
Content-Type: application/json
Vary: Accept
{
"count": 238,
"next": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=180&ordering=-homepage",
"previous": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=140&ordering=-homepage",
"results": [
{
"id": 176,
"name": "Galaxy",
"description": "Open, web-based platform for data intensive biomedical research. Whether on the free public server or your own instance, you can perform, reproduce, and share complete analyses.",
"homepage": "https://galaxyproject.org/",
"biotoolsID": "galaxy",
"biotoolsCURIE": "biotools:galaxy",
"tool_type": [
"Bioinformatics portal",
"Web API",
"Web application",
"Workflow"
],
"collection": [
"Animal and Crop Genomics",
"Galaxy"
],
"scientific_topics": [
"http://edamontology.org/topic_0085",
"http://edamontology.org/topic_3673",
"http://edamontology.org/topic_0622",
"http://edamontology.org/topic_0797",
"http://edamontology.org/topic_0196"
],
"primary_publication": [
"10.1093/nar/gkw343",
"10.1093/nar/gkac247"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Contributor"
],
"name": "Galaxy Community",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Consortium",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Galaxy support",
"email": null,
"url": "https://biostar.usegalaxy.org/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "AFL-3.0",
"documentation": "https://usegalaxy.org/api/docs",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": 400,
"citations": null,
"annual_visits": 0,
"last_update": "2024-11-24T14:46:57.861339Z",
"teams": [
"South Green"
],
"source_repository": "https://github.com/galaxyproject/galaxy"
},
{
"id": 111,
"name": "Galaxy Pasteur",
"description": "A wide variety of tools from the Galaxy instance of Institut Pasteur, France.",
"homepage": "https://galaxy.pasteur.fr/",
"biotoolsID": "Galaxy_Pasteur",
"biotoolsCURIE": "biotools:Galaxy_Pasteur",
"tool_type": [
"Workbench"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_0080"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2020-03-16T18:06:05Z",
"teams": [],
"source_repository": null
},
{
"id": 260,
"name": "CulebrONT",
"description": "CulebrONT is a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes.",
"homepage": "https://forge.ird.fr/diade/culebront_pipeline",
"biotoolsID": "culebront",
"biotoolsCURIE": "biotools:culebront",
"tool_type": [
"Workflow"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0769",
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_0196"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2022-01-10T14:00:06.343876Z",
"teams": [
"South Green"
],
"source_repository": null
},
{
"id": 292,
"name": "Pan1c",
"description": "Pan1c is a Snakemake workflow that simplifies the creation of pangenomes by focusing on the comparison of similar chromosomes, using either PGGB or Minigraph-Cactus.\nA pangenome graph is first generated individually for each chromosome, and then these chromosome-scale pangenomes are concatenated into a final graph. This approach reduces construction time through parallelization and facilitates interpretation as well as downstream analyses. Throughout the process, various graphs and statistics are produced to help users assess the quality of the pangenome graph and interpret the results.\nAll these visualizations and statistics are accessible via a web page generated by Pan1c-view.",
"homepage": "https://forge.inrae.fr/genotoul-bioinfo/Pan1c/pan1c",
"biotoolsID": "pan1c",
"biotoolsCURIE": "biotools:pan1c",
"tool_type": [
"Workflow"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0797",
"http://edamontology.org/topic_3796"
],
"primary_publication": [],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Developer"
],
"name": "Alexis Mergez",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Martin Racoupeau",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Philippe Bardou",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0002-0004-0251",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Christophe Klopp",
"email": "christophe.klopp@inrae.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0001-7126-5477",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "GenoToul bioinformatics facility",
"email": null,
"url": "https://bioinfo.genotoul.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
}
],
"tool_licence": null,
"documentation": "https://forge.inrae.fr/genotoul-bioinfo/Pan1c/pan1c/-/wikis/home",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2026-08-25T11:40:00.095755Z",
"teams": [],
"source_repository": "https://forge.inrae.fr/genotoul-bioinfo/Pan1c/pan1c"
},
{
"id": 247,
"name": "metagWGS",
"description": "metagWGS is a workflow dedicated to the analysis of metagenomic data. It allows assembly, taxonomic annotation, and functional annotation of predicted genes. Since release 2.3, binning step with the possibility of cross-alignment is included. It has been developed in collaboration with several CATI BIOS4biol agents. Funded by Antiselfish Project (Labex Ecofect), ExpoMicoPig project (France Futur elevage) and SeqOccIn project (CPER - Occitanie Toulouse / FEDER), ATB_Biofilm funded by PNREST Anses, France genomique (ANR-10-INBS-09-08) and Resalab Ouest.",
"homepage": "https://forge.inrae.fr/genotoul-bioinfo/metagwgs",
"biotoolsID": "metagwgs",
"biotoolsCURIE": "biotools:metagwgs",
"tool_type": [
"Workflow"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3391",
"http://edamontology.org/topic_3174"
],
"primary_publication": [],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Claire Hoede",
"email": "claire.hoede@inrae.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0001-5054-7731",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "GenoToul bioinformatics facility",
"email": null,
"url": "http://bioinfo.genotoul.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Division",
"note": null
}
],
"tool_licence": null,
"documentation": "https://genotoul-bioinfo.pages-forge.inrae.fr/metagwgs/master/index.html",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2026-06-23T04:42:34.408916Z",
"teams": [
"Genotoul-bioinfo"
],
"source_repository": "https://forge.inrae.fr/genotoul-bioinfo/metagwgs"
},
{
"id": 258,
"name": "FAIR-Checker",
"description": "FAIR-Checker is a tool aimed at assessing FAIR principles and empowering data provider to enhance the quality of their digital resources. Data providers and consumers can check how FAIR are web resources. Developers can explore and inspect metadata exposed in web resources.",
"homepage": "https://fair-checker.france-bioinformatique.fr",
"biotoolsID": "fair-checker",
"biotoolsCURIE": "biotools:fair-checker",
"tool_type": [
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3316",
"http://edamontology.org/topic_0089"
],
"primary_publication": [
"10.1186/s13326-023-00289-5"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [],
"tool_licence": null,
"documentation": null,
"maturity": "Emerging",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T14:45:19.260708Z",
"teams": [
"BiRD",
"IFB Core"
],
"source_repository": null
},
{
"id": 282,
"name": "easy16S",
"description": "Easy16S is designed to facilitate the exploration, visualization, and analysis of microbiome data.",
"homepage": "https://easy16s.migale.inrae.fr/",
"biotoolsID": "easy16s",
"biotoolsCURIE": "biotools:easy16s",
"tool_type": [],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3174"
],
"primary_publication": [
"10.21105/joss.06704"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [],
"name": "Cédric Midoux",
"email": "cedric.midoux@inrae.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-7964-0929",
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://easy16s.migale.inrae.fr/",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2025-12-11T14:36:21.065324Z",
"teams": [
"MIGALE"
],
"source_repository": "https://doi.org/10.57745/ZN1HXQ"
},
{
"id": 237,
"name": "D-GENIES",
"description": "D-GENIES – for Dot plot large Genomes in an Interactive, Efficient and Simple way – is an online tool designed to compare two genomes. It supports large genome and you can interact with the dot plot to improve the visualization.",
"homepage": "https://dgenies.toulouse.inrae.fr/",
"biotoolsID": "d-genies",
"biotoolsCURIE": "biotools:d-genies",
"tool_type": [
"Web application",
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0622",
"http://edamontology.org/topic_0092",
"http://edamontology.org/topic_0080"
],
"primary_publication": [
"10.7717/peerj.4958"
],
"operating_system": [
"Linux",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Developer"
],
"name": "Vincent Dominguez",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Floréal Cabanettes",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Christophe Klopp",
"email": "christophe.klopp@inrae.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0001-7126-5477",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact",
"Developer"
],
"name": "Philippe Bordron",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0003-1975-0920",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Christophe Klopp",
"email": "christophe.klopp@toulouse.inra.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "GenoToul bioinformatics facility",
"email": null,
"url": "http://bioinfo.genotoul.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Division",
"note": null
}
],
"tool_licence": null,
"documentation": "https://dgenies.readthedocs.io/en/latest/index.html",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2026-08-26T08:42:34.626251Z",
"teams": [
"Genotoul-bioinfo"
],
"source_repository": "https://github.com/genotoul-bioinfo/dgenies"
},
{
"id": 190,
"name": "CRISPRFinder",
"description": "Detects this family of direct repeats found in the DNA of many bacteria and archaea.",
"homepage": "https://crisprcas.i2bc.paris-saclay.fr/CrisprCasFinder/Index",
"biotoolsID": "crisprfinder",
"biotoolsCURIE": "biotools:crisprfinder",
"tool_type": [
"Database portal",
"Web application"
],
"collection": [
"CRISPR"
],
"scientific_topics": [
"http://edamontology.org/topic_2885",
"http://edamontology.org/topic_0157",
"http://edamontology.org/topic_0203",
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_0749"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Marie Touchon",
"email": "mtouchon@pasteur.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "Unlicense",
"documentation": null,
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": 480,
"citations": null,
"annual_visits": 2273,
"last_update": "2024-11-24T21:05:00.924973Z",
"teams": [
"EBIO"
],
"source_repository": null
},
{
"id": 112,
"name": "CRISPRCas",
"description": "Suite of web applications for analysing Clustered Regularly Interspaced Short Palindromic Repeats.",
"homepage": "https://crisprcas.i2bc.paris-saclay.fr/",
"biotoolsID": "CRISPRCas",
"biotoolsCURIE": "biotools:CRISPRCas",
"tool_type": [
"Suite"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_0080"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2020-02-07T06:24:26Z",
"teams": [],
"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_0199",
"http://edamontology.org/topic_3053"
],
"primary_publication": [
"10.1093/nar/gku1187"
],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"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
},
{
"type_role": [
"Provider"
],
"name": "GenOuest",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"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": 207,
"name": "Commet",
"description": "This software provides a global similarity overview between all datasets of a large metagenomic project.",
"homepage": "https://colibread.inria.fr/software/commet/",
"biotoolsID": "commet",
"biotoolsCURIE": "biotools:commet",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0080"
],
"primary_publication": [
"10.1109/BIBM.2014.6999135"
],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Pierre Peterlongo",
"email": "pierre.peterlongo@inria.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "GenOuest",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
}
],
"tool_licence": null,
"documentation": "https://github.com/pierrepeterlongo/commet/blob/master/doc/commet_user_guide.pdf",
"maturity": "Emerging",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2018-12-10T12:58:49Z",
"teams": [
"GenOuest"
],
"source_repository": null
},
{
"id": 4,
"name": "Coffee Genome Hub",
"description": "The Coffee Genome Hub is an integrated web-based database providing centralized access to coffee community genomics, genetics and breeding data and analysis tools to facilitate basic, translational and applied research in coffee.",
"homepage": "https://coffee-genome-hub.southgreen.fr/",
"biotoolsID": "Coffee_Genome_Hub",
"biotoolsCURIE": "biotools:Coffee_Genome_Hub",
"tool_type": [
"Database portal"
],
"collection": [
"Genome Hub"
],
"scientific_topics": [
"http://edamontology.org/topic_0780",
"http://edamontology.org/topic_0091"
],
"primary_publication": [
"10.1093/nar/gku1108"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Developer"
],
"name": "Alexis Dereeper",
"email": "alexis.dereeper@ird.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Gaetan Droc",
"email": "droc@cirad.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0003-1849-1269",
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": "GPL-2.0",
"documentation": "http://coffee-genome.org/documentation",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T20:58:58.975865Z",
"teams": [
"South Green"
],
"source_repository": null
},
{
"id": 120,
"name": "Cocoa Genome Hub",
"description": "The Cocoa Genome Hub is an integrated web-based database providing centralized access to the cocoa reference genome sequences and genomic resources.",
"homepage": "https://cocoa-genome-hub.southgreen.fr/",
"biotoolsID": "Cocoa_Genome_Hub",
"biotoolsCURIE": "biotools:Cocoa_Genome_Hub",
"tool_type": [
"Database portal"
],
"collection": [
"Genome Hub",
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_0203",
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_3308",
"http://edamontology.org/topic_3810"
],
"primary_publication": [
"10.1186/s12864-017-4120-9"
],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Argout",
"email": "xavier.argout@cirad.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-0100-5511",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Droc",
"email": "gaetan.droc@cirad.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0003-1849-1269",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Lanaud",
"email": "claire.lanaud@cirad.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0001-6411-7310",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Maintainer"
],
"name": "CIRAD",
"email": null,
"url": "https://www.cirad.fr",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [],
"name": "ANR",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Funding agency",
"note": null
}
],
"tool_licence": "GPL-2.0",
"documentation": "http://api.tripal.info/api/tripal/3.x",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-25T14:00:43.154205Z",
"teams": [
"South Green"
],
"source_repository": null
},
{
"id": 268,
"name": "ChagasDB",
"description": "Manual-curated database regrouping published results referenced in Pubmed.",
"homepage": "https://chagasdb.tagc.univ-amu.fr",
"biotoolsID": "chagasdb",
"biotoolsCURIE": "biotools:chagasdb",
"tool_type": [
"Database portal"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3334",
"http://edamontology.org/topic_3305",
"http://edamontology.org/topic_3421",
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_0634"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [],
"name": "Christophe Chevillard",
"email": "christophe.chevillard@univ-amu.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-5269-8813",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Edecio Cunha-Neto",
"email": "edecunha@gmail.com",
"url": null,
"orcidid": "https://orcid.org/0000-0002-3699-3345",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Lionel Spinelli",
"email": "lionel.spinelli@univ-amu.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0001-9228-8141",
"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": "2024-11-24T14:25:34.821693Z",
"teams": [],
"source_repository": "https://github.com/TAGC-ComplexDisease/ChagasDB"
},
{
"id": 146,
"name": "fqtools",
"description": "A package that provides tools for efficient FASTQ files manipulation.",
"homepage": "https://bioweb.pasteur.fr/packages/pack@fqtools@1.1",
"biotoolsID": "fqtools",
"biotoolsCURIE": "biotools:fqtools",
"tool_type": [
"Suite"
],
"collection": [
"fqtools"
],
"scientific_topics": [
"http://edamontology.org/topic_0080"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Primary contact",
"Maintainer"
],
"name": "Nicolas Joly",
"email": "njoly@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": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2020-06-16T10:55:24Z",
"teams": [
"Pasteur HUB"
],
"source_repository": "ftp://ftp.pasteur.fr/pub/gensoft/projects/fqtools/README"
},
{
"id": 147,
"name": "SortMeRNA",
"description": "Sequence analysis tool for filtering, mapping and OTU-picking NGS reads.",
"homepage": "https://bioinfo.cristal.univ-lille.fr/RNA/sortmerna/",
"biotoolsID": "sortmerna",
"biotoolsCURIE": "biotools:sortmerna",
"tool_type": [
"Web application",
"Command-line tool"
],
"collection": [
"ELIXIR Trainer Tools"
],
"scientific_topics": [
"http://edamontology.org/topic_3941",
"http://edamontology.org/topic_3174",
"http://edamontology.org/topic_3308"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": null,
"email": null,
"url": "https://github.com/sortmerna/sortmerna/issues",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": null,
"email": null,
"url": "https://github.com/biocore/sortmerna/issues",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://github.com/sortmerna/sortmerna/wiki/User-manual-v4.3.2",
"maturity": null,
"cost": null,
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2024-11-24T14:49:42.747317Z",
"teams": [
"Bilille"
],
"source_repository": null
},
{
"id": 86,
"name": "BIII (BioImage Informatics Index, biii.eu)",
"description": "BIII (BioImage Informatics Index, biii.eu) is a registry of software tools, image databases for benchmarking, and training materials for bioimage analysis. Software tools are organized as either a full protocol of analysis (workflow), a specific component to construct a workflow, or a software platform or library (collection). They are described using EDAM-bioimaging. All entries are exposed following FAIR principles and accessible for other usage with ODC-By v1.0 license.",
"homepage": "https://biii.eu",
"biotoolsID": "BISE",
"biotoolsCURIE": "biotools:BISE",
"tool_type": [
"Database portal",
"Bioinformatics portal",
"Web application"
],
"collection": [
"elixir-fr-sdp-2019",
"NEUBIAS"
],
"scientific_topics": [
"http://edamontology.org/topic_3298",
"http://edamontology.org/topic_0769",
"http://edamontology.org/topic_3382",
"http://edamontology.org/topic_3063",
"http://edamontology.org/topic_0091"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Contributor"
],
"name": "Matúš Kalaš",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0002-1509-4981",
"gridid": null,
"typeEntity": "Person",
"note": "Coordinator of the EDAM-bioimaging ontology development"
},
{
"type_role": [
"Contributor"
],
"name": "Leandro Scholz",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0002-2411-0429",
"gridid": null,
"typeEntity": "Person",
"note": "Worked on the curation instructions"
},
{
"type_role": [
"Contributor"
],
"name": "Florian Levet",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0002-4009-6225",
"gridid": null,
"typeEntity": "Person",
"note": "Development of Python scripts"
},
{
"type_role": [
"Documentor"
],
"name": "Taggers",
"email": null,
"url": "http://biii.eu/show-taggers",
"orcidid": null,
"gridid": null,
"typeEntity": "Consortium",
"note": "People curating tools"
},
{
"type_role": [
"Provider"
],
"name": "NEUBIAS Network of Bioimage Analysts",
"email": null,
"url": "https://neubias.eu",
"orcidid": null,
"gridid": null,
"typeEntity": "Consortium",
"note": "COST action having supported the creation and curation of this database"
},
{
"type_role": [
"Primary contact"
],
"name": "Perrine Paul-Gilloteaux",
"email": "perrine.paul-gilloteaux@univ-nantes.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-4822-165X",
"gridid": null,
"typeEntity": "Person",
"note": "Leader of the project"
},
{
"type_role": [
"Contributor"
],
"name": "Kota Miura",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0001-6926-191X",
"gridid": null,
"typeEntity": "Person",
"note": "Main technical support and one of the founders of the project"
},
{
"type_role": [
"Contributor"
],
"name": "Chong Zhang",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": "Co-leader of the developement"
},
{
"type_role": [
"Contributor"
],
"name": "Alban Gaignard",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0002-3597-8557",
"gridid": null,
"typeEntity": "Person",
"note": "Developed the core ontology (data model) and enabled reuse of the content through W3C standards"
}
],
"tool_licence": "Other",
"documentation": "https://github.com/NeuBIAS/bise/wiki",
"maturity": "Emerging",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2021-03-26T15:45:10Z",
"teams": [],
"source_repository": null
},
{
"id": 36,
"name": "Banana Genome Hub",
"description": "A Next-Generation Information System for Musa genomics",
"homepage": "https://banana-genome-hub.southgreen.fr/",
"biotoolsID": "Banana_Genome_Hub",
"biotoolsCURIE": "biotools:Banana_Genome_Hub",
"tool_type": [
"Database portal"
],
"collection": [
"Genome Hub",
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_0622",
"http://edamontology.org/topic_0797",
"http://edamontology.org/topic_3308",
"http://edamontology.org/topic_3810"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Developer"
],
"name": "Gaëtan Droc",
"email": "gaetan.droc@cirad.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0003-1849-1269",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Mathieu Rouard",
"email": "m.rouard@cgiar.org",
"url": null,
"orcidid": "https://orcid.org/0000-0003-1849-1269",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Bioversity International",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [],
"name": "ANR",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Funding agency",
"note": null
},
{
"type_role": [
"Maintainer"
],
"name": "CIRAD",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
}
],
"tool_licence": "GPL-2.0",
"documentation": "https://banana-genome-hub.southgreen.fr/documentation",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T20:59:38.690746Z",
"teams": [
"South Green"
],
"source_repository": null
},
{
"id": 290,
"name": "ASTERICS",
"description": "A Tool for the ExploRation and Integration of omiCS",
"homepage": "https://asterics.miat.inrae.fr/",
"biotoolsID": "asterics",
"biotoolsCURIE": "biotools:asterics",
"tool_type": [
"Bioinformatics portal",
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3391",
"http://edamontology.org/topic_2269"
],
"primary_publication": [],
"operating_system": [
"Mac",
"Linux",
"Windows"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Nathalie Vialaneix",
"email": "nathalie.vialaneix@inrae.fr",
"url": "http://www.nathalievialaneix.eu",
"orcidid": "https://orcid.org/0000-0003-1156-0639",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Support"
],
"name": "Support",
"email": "asterics-tlse@inrae.fr",
"url": "https://forgemia.inra.fr/asterics/asterics-issues",
"orcidid": null,
"gridid": null,
"typeEntity": "Project",
"note": null
}
],
"tool_licence": null,
"documentation": "https://asterics.pages.mia.inra.fr/user_documentation/",
"maturity": "Emerging",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2022-07-08T06:46:37.635792Z",
"teams": [
"Genotoul-bioinfo"
],
"source_repository": null
}
]
}