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=-last_update",
"previous": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=140&ordering=-last_update",
"results": [
{
"id": 104,
"name": "ANISEED",
"description": "ANISEED is the main model organism database for the worldwide community of scientists working on tunicates (sister-group of vertebrates). It integrates for each species: \ni) a main knowledge base with extended functional, gene expression, phenotyping, anatomical and phylogenetic information; \nii) A multispecies genomic browser; \niii) a Genomicus gene synteny browser.",
"homepage": "https://www.aniseed.fr",
"biotoolsID": "ANISEED",
"biotoolsCURIE": "biotools:ANISEED",
"tool_type": [
"Database portal",
"Web API",
"Web application",
"Ontology"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_3065",
"http://edamontology.org/topic_3383",
"http://edamontology.org/topic_3679",
"http://edamontology.org/topic_3064",
"http://edamontology.org/topic_0194",
"http://edamontology.org/topic_0085",
"http://edamontology.org/topic_2229",
"http://edamontology.org/topic_0089",
"http://edamontology.org/topic_0219",
"http://edamontology.org/topic_0084",
"http://edamontology.org/topic_3308"
],
"primary_publication": [
"10.1101/gr.108175.110",
"10.1093/nar/gkv966",
"10.1093/nar/gkx1108",
"10.1016/j.cub.2005.12.044",
"10.1093/nar/gkz955"
],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Support"
],
"name": null,
"email": "contact@aniseed.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Support"
],
"name": null,
"email": "contact@aniseed.cnrs.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Patrick Lemaire",
"email": "patrick.lemaire@crbm.cnrs.fr",
"url": "http://www.crbm.cnrs.fr/en/team/lemaire/",
"orcidid": "https://orcid.org/0000-0003-4925-2009",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Christelle Dantec",
"email": "christelle.dantec@crbm.cnrs.fr",
"url": "http://www.crbm.cnrs.fr/en/team/lemaire/",
"orcidid": "https://orcid.org/0000-0001-7247-6460",
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "GPL-3.0",
"documentation": "https://www.aniseed.fr/api",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2023-09-25T14:25:18.910230Z",
"teams": [],
"source_repository": null
},
{
"id": 103,
"name": "Ciona robusta Anatomy and Development Ontology",
"description": "The first ontology describing the anatomy and the development of Ciona robusta, based on the Hotta developmental table.",
"homepage": "https://www.aniseed.fr/aniseed/anatomy/find_devstage",
"biotoolsID": "Ciona_robusta_Anatomy_and_Development_Ontology",
"biotoolsCURIE": "biotools:Ciona_robusta_Anatomy_and_Development_Ontology",
"tool_type": [
"Ontology"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_3064"
],
"primary_publication": [
"10.1101/gr.108175.110",
"10.1093/nar/gkv966"
],
"operating_system": [],
"tool_credit": [],
"tool_licence": "Freeware",
"documentation": null,
"maturity": "Legacy",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2023-09-25T13:07:23.980491Z",
"teams": [],
"source_repository": null
},
{
"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": [],
"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": [
"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": [
"Primary contact",
"Contributor"
],
"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": [
"Maintainer",
"Contributor"
],
"name": "Damien Vintache",
"email": "Damien.Vintache@univ-nantes.fr",
"url": null,
"orcidid": null,
"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": [
"Provider"
],
"name": "BiRD",
"email": "pf-bird@univ-nantes.fr",
"url": "http://pf-bird.univ-nantes.fr",
"orcidid": null,
"gridid": null,
"typeEntity": "Division",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Erwan Delage",
"email": "erwan.delage@univ-nantes.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"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": 107,
"name": "GENOMICUS",
"description": "Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.",
"homepage": "http://www.genomicus.biologie.ens.fr/genomicus/",
"biotoolsID": "GENOMICUS",
"biotoolsCURIE": "biotools:GENOMICUS",
"tool_type": [
"Database portal",
"Web application"
],
"collection": [
"elixir-fr-sdp-2019",
"GENOMICUS"
],
"scientific_topics": [
"http://edamontology.org/topic_3943",
"http://edamontology.org/topic_0194",
"http://edamontology.org/topic_3299",
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_0797",
"http://edamontology.org/topic_0622",
"http://edamontology.org/topic_0623"
],
"primary_publication": [
"10.1093/bioinformatics/btq079",
"10.1093/nar/gkab1091"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Support"
],
"name": null,
"email": "genomicus-web@ens.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Hugues Roest Crollius",
"email": "hrc@ens.fr",
"url": "http://www.ibens.ens.fr/?rubrique43",
"orcidid": "http://orcid.org/0000-0002-8209-173X",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "IBENS - DYOGEN Team",
"email": null,
"url": "http://www.ibens.ens.fr/?rubrique43&lang=en",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [],
"name": "PB-IBENS",
"email": null,
"url": "https://www.ibens.ens.fr/?rubrique55",
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Alexandra Louis",
"email": "alouis@biologie.ens.fr",
"url": "http://www.ibens.ens.fr/spip.php?article182",
"orcidid": "http://orcid.org/0000-0001-7032-5650",
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "https://www.youtube.com/watch?v=CokUh3fUbGQ",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2023-03-06T14:10:23.175189Z",
"teams": [
"PB-IBENS"
],
"source_repository": null
},
{
"id": 116,
"name": "SulfAtlas",
"description": "SulfAtlas describes the family and sub-families of structurally-related sulfatases. Sub-families are created based on phylogenetic analyses and essentially correspond to different substrate specificities",
"homepage": "https://sulfatlas.sb-roscoff.fr/",
"biotoolsID": "SulfAtlas",
"biotoolsCURIE": "biotools:SulfAtlas",
"tool_type": [
"Database portal"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_3068",
"http://edamontology.org/topic_0154",
"http://edamontology.org/topic_0160",
"http://edamontology.org/topic_3174",
"http://edamontology.org/topic_3293",
"http://edamontology.org/topic_0623"
],
"primary_publication": [],
"operating_system": [
"Mac",
"Linux",
"Windows"
],
"tool_credit": [
{
"type_role": [],
"name": "Tristan Barbeyron",
"email": "tristan.barbeyron@sb-roscoff.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Gurvan Michel",
"email": "gurvan@sb-roscoff.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-3009-6205",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Mark Stam",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [],
"name": "Pernelle Lelièvre",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2023-01-25T21:30:47.860975Z",
"teams": [],
"source_repository": null
},
{
"id": 8,
"name": "Plant DataDiscovery",
"description": "The purpose of this web portal is to facilitate the discoverability of public data on plant biology managed by different laboratories across the world.\n\nThe web portal indexes and makes findable any kind of plant data. Plant DataDiscovery is an implementation of DataDiscovery.",
"homepage": "https://urgi.versailles.inrae.fr/data-discovery/",
"biotoolsID": "Plant_DataDiscovery",
"biotoolsCURIE": "biotools:Plant_DataDiscovery",
"tool_type": [
"Database portal",
"Web service",
"Web API",
"Web application"
],
"collection": [
"elixir-fr-sdp-2019",
"URGI"
],
"scientific_topics": [
"http://edamontology.org/topic_0780",
"http://edamontology.org/topic_0091",
"http://edamontology.org/topic_0610",
"http://edamontology.org/topic_3071",
"http://edamontology.org/topic_3810"
],
"primary_publication": [
"10.1186/s13059-018-1491-4"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Primary contact",
"Support"
],
"name": "Support service",
"email": "urgi-support@inrae.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": "BSD-3-Clause",
"documentation": "https://urgi.versailles.inrae.fr/data-discovery/about",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2022-12-12T16:19:23.574076Z",
"teams": [],
"source_repository": null
},
{
"id": 245,
"name": "Gbrowse giant virus",
"description": "A genome browser instance dedicated to giant viruses discovered by the IGS Laboratory",
"homepage": "https://www.igs.cnrs-mrs.fr/cgi-bin/gb2/gbrowse",
"biotoolsID": "gbrowse_giant_virus",
"biotoolsCURIE": "biotools:gbrowse_giant_virus",
"tool_type": [],
"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": "2022-12-01T20:12:00.006926Z",
"teams": [],
"source_repository": null
},
{
"id": 39,
"name": "SPROUTS",
"description": "SPROUTS has two general functions.\nThe first is to provide existing mutation data given a protein specified by a PDB ID. This is Query mode.\nThe second is to generate new mutation data based on a new PDB ID or a user input. This is Submit mode.",
"homepage": "http://sprouts.rpbs.univ-paris-diderot.fr/",
"biotoolsID": "SPROUTS",
"biotoolsCURIE": "biotools:SPROUTS",
"tool_type": [
"Database portal"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0199"
],
"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": "2022-11-30T13:37:17.543436Z",
"teams": [],
"source_repository": null
},
{
"id": 274,
"name": "orsum",
"description": "A Python package for filtering and comparing enrichment analyses using a simple principle.",
"homepage": "https://anaconda.org/bioconda/orsum",
"biotoolsID": "orsum",
"biotoolsCURIE": "biotools:orsum",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0203",
"http://edamontology.org/topic_0634",
"http://edamontology.org/topic_3407"
],
"primary_publication": [],
"operating_system": [
"Mac",
"Linux",
"Windows"
],
"tool_credit": [
{
"type_role": [],
"name": "Ozan Ozisik",
"email": "ozan.ozisik@univ-amu.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0001-5980-8002",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Anaïs Baudot",
"email": "anais.baudot@univ-amu.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Morgane Térézol",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2022-10-29T06:24:51.903827Z",
"teams": [],
"source_repository": "https://github.com/ozanozisik/orsum/"
},
{
"id": 174,
"name": "Linda",
"description": "The web application Linda offers a complete tool for entering and managing metadata associated with a phenotyping experiment on plants. It thus makes it possible to intuitively describe experimental related information such as, for example, the experimental design, the growth protocols, the environmental variable measurements, etc. Linda is coupled with a database that stores this information in a structured manneer using oriented graphs. This database uses reference ontologies (e.g., Plant Ontology, Crop Ontology, etc.) and standards dedicated to this type of experiment such as the Minimal Information About Plant Phenotyping Experiment (MIAPPE) standard. Data sharing is facilitated on the one hand by respecting the FAIR principles (Findable Accessible Interoperable Reusable) and oon the other hand, by exporting this metadata relating to the experiment in tabulated formats or formatted for submission in the international databases (ISA-tab).",
"homepage": "https://services.cbib.u-bordeaux.fr/linda/",
"biotoolsID": "xeml-lab",
"biotoolsCURIE": "biotools:xeml-lab",
"tool_type": [
"Desktop application",
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3292",
"http://edamontology.org/topic_0089",
"http://edamontology.org/topic_0219",
"http://edamontology.org/topic_3053",
"http://edamontology.org/topic_0091"
],
"primary_publication": [
"10.1111/j.1365-3040.2009.01964.x"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Contributor"
],
"name": "CHen Zhui",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Emmanuel Bouilhol",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Yves Gibon",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Cecile Cabasson",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [],
"name": "Université de Bordeaux (CGFB)",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Consortium",
"note": null
},
{
"type_role": [
"Support"
],
"name": "Benjamin Dartigues",
"email": "benjamin.dartigues@u-bordeaux.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Benjamin Dartigues",
"email": "benjamin.dartigues@u-bordeaux.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer",
"Primary contact"
],
"name": "Benjamin Dartigues",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Yves Gibon",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Cecile Cabasson",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "UMR 1332 - Biologie du Fruit et Pathologie",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Developer",
"Contributor"
],
"name": "Alexis Groppi",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "Centre de Bioinformatique de Bordeaux (CBiB)",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Developer",
"Contributor"
],
"name": "Macha Nikolski",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "INRA",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Consortium",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "u-bordeaux.fr",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
}
],
"tool_licence": "MIT",
"documentation": "https://services.cbib.u-bordeaux.fr/linda",
"maturity": "Emerging",
"cost": "Free of charge",
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2022-09-27T14:48:43.394660Z",
"teams": [
"CBiB"
],
"source_repository": "https://services.cbib.u-bordeaux.fr/linda/"
},
{
"id": 68,
"name": "NORINE",
"description": "NORINE is a platform that includes a database of nonribosomal peptides together with tools for their analysis.",
"homepage": "http://norine.univ-lille.fr/norine/",
"biotoolsID": "NORINE",
"biotoolsCURIE": "biotools:NORINE",
"tool_type": [
"Database portal"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_3332",
"http://edamontology.org/topic_3301",
"http://edamontology.org/topic_0078",
"http://edamontology.org/topic_3307",
"http://edamontology.org/topic_3071"
],
"primary_publication": [
"10.1093/nar/gkz1000"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [],
"name": "Norine team",
"email": "norine@univ-lille.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": "CC-BY-NC-SA-4.0",
"documentation": null,
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2022-07-21T13:25:21.706482Z",
"teams": [
"Bilille"
],
"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": 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": 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": 192,
"name": "EDAM-Browser",
"description": "The EDAM Browser is a client-side web-based visualization javascript widget of the EDAM ontology. \nThe EDAM Browser provides users a simple and performant interface to explore EDAM when annotating or searching for bioinformatics resources.\nIts goals are to help describing bio-related resources and service with EDAM, and to facilitate and foster community contributions to EDAM.",
"homepage": "https://github.com/IFB-ElixirFr/edam-browser",
"biotoolsID": "edam-browser",
"biotoolsCURIE": "biotools:edam-browser",
"tool_type": [
"Plug-in",
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0605",
"http://edamontology.org/topic_0092"
],
"primary_publication": [
"10.21105/joss.00698"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Contributor"
],
"name": "Christophe Blanchet",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Hager Eldakroury",
"email": null,
"url": "https://github.com/HagerDakroury",
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Bryan Brancotte",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0001-8669-5525",
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Maintainer"
],
"name": "Hervé Ménager",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0002-7552-1009",
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": "MIT",
"documentation": null,
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2022-01-03T15:45:09.883379Z",
"teams": [
"Pasteur HUB",
"IFB Core"
],
"source_repository": "https://github.com/IFB-ElixirFr/edam-browser"
},
{
"id": 287,
"name": "MiBiOmics",
"description": "An interactive web application for multi-omics data exploration and integration.\n\nA web application for multi-omics analysis.",
"homepage": "https://shiny-bird.univ-nantes.fr/app/Mibiomics",
"biotoolsID": "mibiomics",
"biotoolsCURIE": "biotools:mibiomics",
"tool_type": [
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0769",
"http://edamontology.org/topic_0602",
"http://edamontology.org/topic_3360"
],
"primary_publication": [],
"operating_system": [],
"tool_credit": [
{
"type_role": [],
"name": "Johanna Zoppi",
"email": "johanna.zoppi@univ-nantes.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-8688-8201",
"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": "Person",
"note": null
},
{
"type_role": [],
"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": [],
"name": "LS2N",
"email": null,
"url": "http://www.ls2n.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"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": [
"Provider"
],
"name": "TENS",
"email": null,
"url": "https://www.inserm-tens.com/",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
}
],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2021-11-08T21:27:18.126015Z",
"teams": [
"BiRD"
],
"source_repository": null
},
{
"id": 261,
"name": "Panache",
"description": "Panache (Pangenome analyzer with chromosomal exploration) is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show aresence/absence information of pangenomic blocks of sequence or genes in a browser-like display.",
"homepage": "http://github.com/SouthGreenPlatform/panache",
"biotoolsID": "panache",
"biotoolsCURIE": "biotools:panache",
"tool_type": [
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0654",
"http://edamontology.org/topic_0621"
],
"primary_publication": [
"10.1093/bioinformatics/btab688"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Mathieu Rouard",
"email": "m.rouard@cgiar.org",
"url": null,
"orcidid": "https://orcid.org/0000-0003-0284-1885",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Éloi Durant",
"email": "eloi.durant@ird.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-2734-4327",
"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": "2021-11-01T10:14:54.337479Z",
"teams": [
"South Green"
],
"source_repository": null
},
{
"id": 144,
"name": "SynTView",
"description": "Comparative and interactive viewer for microbial genomes, designed to run as either a web-based tool (Flash technology) or a desktop application (AIR environment). The basis of the program is a generic genome browser with sub-maps holding information about genomic objects. The software is characterized by the presentation of syntenic organisations of microbial genomes and the visualization of polymorphism data along these genomes; these features are accessible to the user in an integrated way.",
"homepage": "http://genopole.pasteur.fr/SynTView/",
"biotoolsID": "syntview",
"biotoolsCURIE": "biotools:syntview",
"tool_type": [
"Web application",
"Desktop application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3168",
"http://edamontology.org/topic_0797"
],
"primary_publication": [
"10.1186/1471-2105-14-277"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": null,
"email": "plechat@pasteur.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "LGPL-3.0",
"documentation": "http://hub18.hosting.pasteur.fr/SynTView/documentation/",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2021-05-19T14:52:04Z",
"teams": [
"Pasteur HUB"
],
"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": 167,
"name": "MPscan",
"description": "MPscan (multi-pattern scan) is a program for mapping short reads (<30bp) exactly on a set of reference sequences (eg, a genome) without indexing the reference. MPscan performs only exact mapping (no substitution, nor indels), is fast (optimal complexity), and easy to use.",
"homepage": "http://www.atgc-montpellier.fr/mpscan/",
"biotoolsID": "mpscan",
"biotoolsCURIE": "biotools:mpscan",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3308",
"http://edamontology.org/topic_0622"
],
"primary_publication": [
"10.1007/978-3-642-04241-6_21"
],
"operating_system": [
"Linux",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Vincent Lefort",
"email": "Vincent.Lefort@lirmm.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "http://www.atgc-montpellier.fr/download/papers/mpscan_manual_2008.pdf",
"maturity": null,
"cost": null,
"unique_visits": 100,
"citations": null,
"annual_visits": 0,
"last_update": "2021-04-22T06:40:43Z",
"teams": [
"ATGC"
],
"source_repository": null
}
]
}