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=180&ordering=tool_licence",
"previous": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=140&ordering=tool_licence",
"results": [
{
"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": 118,
"name": "SouthGreen_Galaxy Not found.",
"description": "A Galaxy instance focused on agriculture, food, biodiversity and environment, from the Agropolis campus in France.",
"homepage": "http://galaxy.southgreen.fr/galaxy",
"biotoolsID": "SouthGreen_Galaxy",
"biotoolsCURIE": "biotools:SouthGreen_Galaxy",
"tool_type": [
"Workbench"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_3810"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [],
"tool_licence": null,
"documentation": "https://southgreen.fr/content/galaxy-tool",
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2020-01-24T09:53:10Z",
"teams": [],
"source_repository": null
},
{
"id": 184,
"name": "VAST",
"description": "Tool for viewing protein structure neighbours.",
"homepage": "http://www.ncbi.nlm.nih.gov/Structure/VAST/vast.shtml",
"biotoolsID": "vast",
"biotoolsCURIE": "biotools:vast",
"tool_type": [
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_2814",
"http://edamontology.org/topic_0078",
"http://edamontology.org/topic_0082",
"http://edamontology.org/topic_0736"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Stephen HBryant",
"email": "bryant@ncbi.nlm.nih.gov",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://www.ncbi.nlm.nih.gov/Structure/VAST/vasthelp.html",
"maturity": null,
"cost": null,
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2021-04-25T13:21:04Z",
"teams": [
"MIGALE"
],
"source_repository": null
},
{
"id": 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": 148,
"name": "Vidjil",
"description": "Open-source platform for the interactive analysis of high-throughput sequencing data from lymphocyte recombinations. It contains an algorithm gathering reads into clonotypes according to their V(D)J junctions, a web application made of a sample, experiment and patient database and a visualization for the analysis of clonotypes along the time.",
"homepage": "http://www.vidjil.org/",
"biotoolsID": "vidjil",
"biotoolsCURIE": "biotools:vidjil",
"tool_type": [
"Web application",
"Web interface",
" Command-line"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0080",
"http://edamontology.org/topic_0804"
],
"primary_publication": [
"10.1371/journal.pone.0172249"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Support",
"email": "contact@vidjil.org",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://github.com/vidjil/vidjil",
"maturity": null,
"cost": null,
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2018-12-10T12:58:58Z",
"teams": [
"Bilille"
],
"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": 128,
"name": "Tedna",
"description": "A lightweight de novo transposable element assembler. It assembles the transposable elements directly from the raw reads.",
"homepage": "http://urgi.versailles.inra.fr/Tools/Tedna",
"biotoolsID": "tedna",
"biotoolsCURIE": "biotools:tedna",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0196",
"http://edamontology.org/topic_0080",
"http://edamontology.org/topic_0654"
],
"primary_publication": [],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": null,
"email": "urgi-contact@versailles.inra.fr",
"url": "https://urgi.versailles.inra.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://urgi.versailles.inra.fr/content/download/2962/25436/file/tedna_doc.pdf",
"maturity": null,
"cost": null,
"unique_visits": 557,
"citations": null,
"annual_visits": 1872,
"last_update": "2018-12-10T12:58:49Z",
"teams": [],
"source_repository": null
},
{
"id": 124,
"name": "TOGGLE",
"description": "Toolbox for generic NGS analyses.",
"homepage": "https://github.com/SouthGreenPlatform/TOGGLE",
"biotoolsID": "toggle",
"biotoolsCURIE": "biotools:toggle",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3168",
"http://edamontology.org/topic_0080"
],
"primary_publication": [],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Support",
"email": "toggle@ird.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://github.com/SouthGreenPlatform/TOGGLE",
"maturity": null,
"cost": null,
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2018-12-10T12:58:58Z",
"teams": [
"South Green"
],
"source_repository": null
},
{
"id": 14,
"name": "UMD-Predictor",
"description": "A tool that provides a combinatorial approach to identify potential pathogenic variations, that associates the following data: localization within the protein, conservation, biochemical properties of the mutant and wild-type residues, and the potential impact of the variation on mRNA.",
"homepage": "http://umd-predictor.eu",
"biotoolsID": "umd-predictor",
"biotoolsCURIE": "biotools:umd-predictor",
"tool_type": [
"Database portal",
"Web application"
],
"collection": [
"Developed_RD-Connect",
"RD-Connect",
"Rare Disease",
"ELIXIR-FR"
],
"scientific_topics": [
"http://edamontology.org/topic_3512",
"http://edamontology.org/topic_3325",
"http://edamontology.org/topic_0199",
"http://edamontology.org/topic_3574",
"http://edamontology.org/topic_3063",
"http://edamontology.org/topic_0634"
],
"primary_publication": [
"10.1002/humu.22965"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Christophe Beroud",
"email": "christophe.beroud@univ-amu.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "David Salgado",
"email": "david.salgado@univ-amu.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": null,
"maturity": "Mature",
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2019-07-24T20:06:47Z",
"teams": [],
"source_repository": null
},
{
"id": 89,
"name": "Workflow4Metabolomics",
"description": "First fully open-source and collaborative online platform for computational metabolomics. It includes preprocessing, normalization, quality control, statistical analysis of LC/MS, FIA-MS, GC/MS and NMR data.",
"homepage": "https://workflow4metabolomics.org/",
"biotoolsID": "workflow4metabolomics",
"biotoolsCURIE": "biotools:workflow4metabolomics",
"tool_type": [
"Bioinformatics portal"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_2259",
"http://edamontology.org/topic_3172",
"http://edamontology.org/topic_3307"
],
"primary_publication": [
"10.1093/bioinformatics/btu813"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [],
"name": "MetaboHUB - National infrastructure in metabolomics & fluxomics",
"email": null,
"url": "https://www.metabohub.fr/home.html",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Christophe Caron",
"email": null,
"url": "http://abims.sb-roscoff.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Maintainer"
],
"name": "Christophe Duperier",
"email": null,
"url": "https://www6.clermont.inrae.fr/unh/Plateaux-Techniques/Metabolisme-et-Spectrometrie-de-Masse",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Franck Giacomoni",
"email": "franck.giacomoni@inrae.fr",
"url": "https://www6.clermont.inrae.fr/unh/Plateaux-Techniques/Metabolisme-et-Spectrometrie-de-Masse",
"orcidid": "https://orcid.org/0000-0001-6063-4214",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Gildas Le Corguillé",
"email": "lecorguille@sb-roscoff.fr",
"url": "http://abims.sb-roscoff.fr",
"orcidid": "https://orcid.org/0000-0003-1742-9711",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Marie Tremblay-Franco",
"email": null,
"url": "https://www6.toulouse.inrae.fr/axiomm",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Jean-François Martin",
"email": null,
"url": "https://www6.toulouse.inrae.fr/axiomm",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Pierrick Roger-Melee",
"email": null,
"url": "http://www-list.cea.fr/index.php/en/",
"orcidid": "https://orcid.org/0000-0001-8177-4873",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Yann Guitton",
"email": null,
"url": "https://www.laberca.org/plateforme-analytique/presentation/",
"orcidid": "https://orcid.org/0000-0002-4479-0636",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Documentor"
],
"name": "Cécile Canlet",
"email": null,
"url": "https://www6.toulouse.inrae.fr/axiomm",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Misharl Monsoor",
"email": null,
"url": "http://abims.sb-roscoff.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Etienne A. Thévenot",
"email": null,
"url": "http://www-list.cea.fr/index.php/en/",
"orcidid": "https://orcid.org/0000-0003-1019-4577",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Mélanie Pétéra",
"email": null,
"url": "https://www6.clermont.inrae.fr/unh/Plateaux-Techniques/Metabolisme-et-Spectrometrie-de-Masse",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Maintainer"
],
"name": "Workflow4Metabolomics Team",
"email": "contact@workflow4metabolomics.org",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Project",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Marion Landi",
"email": null,
"url": "https://www6.clermont.inrae.fr/unh/Plateaux-Techniques/Metabolisme-et-Spectrometrie-de-Masse",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "IFB - Institut Français de Bioinformatique",
"email": null,
"url": "https://www.france-bioinformatique.fr/en",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Pierre Pericard",
"email": null,
"url": "http://abims.sb-roscoff.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Alexis Delabrière",
"email": null,
"url": "http://www-list.cea.fr/index.php/en/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Sophie Goulitquer",
"email": null,
"url": "http://www.sb-roscoff.fr/en/research-and-training-centre-marine-biology-and-oceanography/services/technological-core-facilities/mass-spectrometry-core-facility",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://workflow4metabolomics.org/howto",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2020-12-16T14:17:30Z",
"teams": [
"ABiMS"
],
"source_repository": "https://github.com/workflow4metabolomics"
},
{
"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": 21,
"name": "HOGENOM",
"description": "It allows selection of sets of homologous genes among species, and visualisation of multiple alignments and phylogenetic trees. It is useful for comparative sequence analysis, phylogeny, molecular evolution studies and to get a view of what is known about a peculiar gene family.",
"homepage": "http://pbil.univ-lyon1.fr/databases/hogenom3.html",
"biotoolsID": "hogenom",
"biotoolsCURIE": "biotools:hogenom",
"tool_type": [
"Database portal",
"Web service"
],
"collection": [
"DRCAT"
],
"scientific_topics": [
"http://edamontology.org/topic_0194",
"http://edamontology.org/topic_0797",
"http://edamontology.org/topic_3293",
"http://edamontology.org/topic_0623",
"http://edamontology.org/topic_0080"
],
"primary_publication": [
"10.1186/1471-2105-10-S6-S3"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Documentor"
],
"name": "DRCAT",
"email": null,
"url": "http://drcat.sourceforge.net/",
"orcidid": null,
"gridid": null,
"typeEntity": "Project",
"note": null
},
{
"type_role": [
"Documentor"
],
"name": "BioCatalogue",
"email": null,
"url": "https://www.biocatalogue.org",
"orcidid": null,
"gridid": null,
"typeEntity": "Project",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": null,
"email": "simon.penel@univ-lyon1.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": null,
"email": null,
"url": "http://prodom.prabi.fr/prodom/current/html/home.php",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "http://doua.prabi.fr/databases/hogenom/home.php?contents=methods",
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-25T14:20:45.218653Z",
"teams": [],
"source_repository": null
},
{
"id": 254,
"name": "MOGAMUN",
"description": "A Multi-Objective Genetic Algorithm to Find Active Modules in Multiplex Biological Networks.\n\nMOGAMUN is a Multi Objective Genetic Algorithm to find active modules (i.e., highly connected subnetworks with an overall deregulation) in MUltiplex biological Networks. For a detailed description of MOGAMUN check out the preprint https://www.biorxiv.org/content/10.1101/2020.05.25.114215v1. All the expression datasets and networks that we used to obtain the results reported in our preprint are available in the GitHub repository https://github.com/elvanov/MOGAMUN-data.",
"homepage": "https://github.com/elvanov/MOGAMUN",
"biotoolsID": "mogamun",
"biotoolsCURIE": "biotools:mogamun",
"tool_type": [
"Library"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0121",
"http://edamontology.org/topic_0203",
"http://edamontology.org/topic_3170",
"http://edamontology.org/topic_0634",
"http://edamontology.org/topic_0602"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [
{
"type_role": [],
"name": null,
"email": "anais.baudot@univ-amu.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2021-02-26T09:22:38Z",
"teams": [
"Systems Biomedicine"
],
"source_repository": null
},
{
"id": 6,
"name": "SNiPlay",
"description": "",
"homepage": null,
"biotoolsID": "",
"biotoolsCURIE": "",
"tool_type": [
"Database portal"
],
"collection": [],
"scientific_topics": [],
"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": null,
"teams": [
"South Green"
],
"source_repository": null
},
{
"id": 7,
"name": "PhROGs",
"description": "",
"homepage": null,
"biotoolsID": "",
"biotoolsCURIE": "",
"tool_type": [
"Database portal"
],
"collection": [],
"scientific_topics": [],
"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": null,
"teams": [],
"source_repository": null
},
{
"id": 286,
"name": "pyBRAvo",
"description": "From a list of genes, pyBRAvo produces upstream regulation or signaling networks. pyBRAvo internally leverages the BioPAX ontolgy, the PathwayCommons knowledge graph, and the SPARQL semantic web query language. pyBRAvo can be used through either a Jupyter notebook, or a command line interface.",
"homepage": "https://github.com/pyBRAvo/pyBRAvo",
"biotoolsID": "pybravo",
"biotoolsCURIE": "biotools:pybravo",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0602",
"http://edamontology.org/topic_2259"
],
"primary_publication": [
"10.1093/database/baaa113"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Provider",
"Support"
],
"name": "BiRD bioinformatics facility",
"email": "pf-bird@univ-nantes.fr",
"url": "https://pf-bird.univ-nantes.fr",
"orcidid": null,
"gridid": null,
"typeEntity": "Division",
"note": null
},
{
"type_role": [
"Primary contact",
"Developer"
],
"name": "Alban Gaignard",
"email": "alban.gaignard@univ-nantes.fr",
"url": "http://albangaignard.github.io/",
"orcidid": "https://orcid.org/0000-0002-3597-8557",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Marie Lefebvre",
"email": "marie.lefebvre@inrae.fr",
"url": "https://mariebvr.github.io/marieBvr/",
"orcidid": "https://orcid.org/0000-0002-3093-5873",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Maxime Folschette",
"email": "maxime.folschette@centralelille.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Jeremy Bourdon",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0001-6674-8626",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Carito Guziolowski",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0001-5192-0745",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "SyMeTRIC",
"email": null,
"url": "http://symetric.univ-nantes.fr/doku.php",
"orcidid": null,
"gridid": null,
"typeEntity": "Project",
"note": null
}
],
"tool_licence": null,
"documentation": "https://github.com/pyBRAvo/pyBRAvo",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2022-05-31T14:22:33.309326Z",
"teams": [
"BiRD"
],
"source_repository": "https://github.com/pyBRAvo/pyBRAvo"
},
{
"id": 56,
"name": "CyanoLyase",
"description": "Manually curated sequence and amino acid motif database gathering all the different phycobilin lyases and related protein sequences available in public databases.",
"homepage": "http://cyanolyase.genouest.org/",
"biotoolsID": "cyanolyase",
"biotoolsCURIE": "biotools:cyanolyase",
"tool_type": [
"Database portal"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0623"
],
"primary_publication": [
"10.1093/nar/gks1091"
],
"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": null,
"documentation": "http://cyanolyase.genouest.org/help",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-25T16:06:21.263559Z",
"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://github.com/SouthGreenPlatform/CulebrONT_pipeline",
"biotoolsID": "culebront",
"biotoolsCURIE": "biotools:culebront",
"tool_type": [
"Workflow"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0196",
"http://edamontology.org/topic_0769",
"http://edamontology.org/topic_0621"
],
"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": 10,
"name": "Dog CNV database",
"description": "",
"homepage": null,
"biotoolsID": "",
"biotoolsCURIE": "",
"tool_type": [
"Database portal"
],
"collection": [],
"scientific_topics": [],
"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": null,
"teams": [],
"source_repository": null
},
{
"id": 11,
"name": "MacSyDB-TXSSdb",
"description": "",
"homepage": null,
"biotoolsID": "",
"biotoolsCURIE": "",
"tool_type": [
"Database portal"
],
"collection": [],
"scientific_topics": [],
"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": null,
"teams": [],
"source_repository": null
}
]
}