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=biotoolsID",
"previous": "https://catalogue.france-bioinformatique.fr/api/tool/?format=api&limit=20&offset=140&ordering=biotoolsID",
"results": [
{
"id": 244,
"name": "NGphylogeny.fr",
"description": "Free, simple to use web service dedicated to reconstructing and analysing phylogenetic relationships between molecular sequences.",
"homepage": "https://ngphylogeny.fr/",
"biotoolsID": "NGphylogeny.fr",
"biotoolsCURIE": "biotools:NGphylogeny.fr",
"tool_type": [
"Web application",
"Workflow",
"Bioinformatics portal"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3293",
"http://edamontology.org/topic_0091"
],
"primary_publication": [
"10.1093/nar/gkz303"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Developer",
"Maintainer",
"Primary contact"
],
"name": "Frédéric Lemoine",
"email": "frederic.lemoine@pasteur.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Damien Correia",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Fabien Mareuil",
"email": "fmareuil@pasteur.fr",
"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": "https://ngphylogeny.fr/documentation",
"maturity": "Emerging",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T20:59:31.390401Z",
"teams": [],
"source_repository": null
},
{
"id": 178,
"name": "NGS-QC Generator",
"description": "Comparative analysis between ChIP-seq and other enrichment-related NGS datasets requires prior characterization of their degree of technical similarity. The Galaxy tool NGS-QC Generator is a computational-based approach that infers quality indicators from the distribution of sequenced reads associated to a particular NGS profile. Such information is then used for comparative purposes and for defining strategies to improve the quality of sample-derived datasets.",
"homepage": "http://www.ngs-qc.org/",
"biotoolsID": "ngs-qc_generator",
"biotoolsCURIE": "biotools:ngs-qc_generator",
"tool_type": [
"Web application"
],
"collection": [
"Animal and Crop Genomics"
],
"scientific_topics": [
"http://edamontology.org/topic_3572",
"http://edamontology.org/topic_3169"
],
"primary_publication": [
"10.1007/978-1-4939-3578-9_13"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": null,
"email": "contact@ngs-qc.org",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "GPL-2.0",
"documentation": "http://www.ngs-qc.org/tutorial.php",
"maturity": null,
"cost": null,
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2024-11-25T14:05:15.865852Z",
"teams": [
"BiGEst"
],
"source_repository": null
},
{
"id": 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": 140,
"name": "NucleusJ",
"description": "Simple and user-friendly ImageJ plugin dedicated to the characterization of nuclear morphology and chromatin organization in 3D.",
"homepage": "http://imagejdocu.tudor.lu/doku.php?id=plugin:stacks:nuclear_analysis_plugin:start",
"biotoolsID": "nucleusj",
"biotoolsCURIE": "biotools:nucleusj",
"tool_type": [
"Desktop application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0097",
"http://edamontology.org/topic_2229",
"http://edamontology.org/topic_3382"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Axel Poulet",
"email": "pouletaxel@gmail.com",
"url": "http://imagejdocu.tudor.lu/doku.php?id=plugin:stacks:nuclear_analysis_plugin:start#authors",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "http://imagejdocu.tudor.lu/doku.php?id=plugin:stacks:nuclear_analysis_plugin:start#usage",
"maturity": null,
"cost": null,
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2024-11-25T15:54:14.614349Z",
"teams": [
"AuBi"
],
"source_repository": null
},
{
"id": 97,
"name": "Ocean Gene Atlas",
"description": "The Ocean Gene Atlas service provides data mining access to three complementary data objects: gene sequence catalogs (ENA), sample environmental context (PANGAEA), and gene abundances estimates in samples (computed by mapping sequence reads onto gene catalogs).\nUser queries are composed of either a sequence (nucleic or protein), or a hidden Markov model derived from a multiple sequence alignment. Homologs of the user query in the gene catalogs are identified using standard sequence similarity search tools (eg BLAST or HMMER), and their read based estimated abundance are displayed in interactive maps and plots. A phylogenetic tree is also inferred in order to situate the user query within its context of marine environmental homologs as well as known homologs from reference sequences.",
"homepage": "http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/",
"biotoolsID": "Ocean_Gene_Atlas",
"biotoolsCURIE": "biotools:Ocean_Gene_Atlas",
"tool_type": [
"Database portal"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_0610",
"http://edamontology.org/topic_3387",
"http://edamontology.org/topic_3174",
"http://edamontology.org/topic_3941"
],
"primary_publication": [
"10.1093/nar/gky376"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Provider"
],
"name": "MIO",
"email": null,
"url": "https://www.mio.osupytheas.fr/",
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [],
"name": "OCEANOMICS",
"email": null,
"url": "http://www.oceanomics.eu/",
"orcidid": null,
"gridid": null,
"typeEntity": "Funding agency",
"note": "ANR-11-BTBR-0008"
},
{
"type_role": [
"Primary contact"
],
"name": null,
"email": "oceangeneatlas@mio.osupytheas.fr",
"url": "http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/credits",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "Not licensed",
"documentation": "http://tara-oceans.mio.osupytheas.fr/ocean-gene-atlas/build/pdf/Ocean-Gene-Atlas_User_Manual.pdf",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T20:59:34.208631Z",
"teams": [],
"source_repository": null
},
{
"id": 157,
"name": "OCG",
"description": "Creates an overlapping class system from an unweighted simple graph G = (V,E).OCG is essentially a hierarchical ascending algorithm. By default, it will fuse the initial classes until further fusions do not increase the modularity but other options are available.",
"homepage": "http://tagc.univ-mrs.fr/tagc/index.php/software/17",
"biotoolsID": "ocg",
"biotoolsCURIE": "biotools:ocg",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0128",
"http://edamontology.org/topic_0602",
"http://edamontology.org/topic_1775"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Brun C",
"email": "brun@tagc.univ-mrs.fr",
"url": "http://tagc.univ-mrs.fr/tagc/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "http://tagc.univ-mrs.fr/tagc/index.php/software/17",
"maturity": null,
"cost": null,
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2024-11-25T16:02:04.280293Z",
"teams": [
"TAGC-BU"
],
"source_repository": null
},
{
"id": 276,
"name": "ODAMNet",
"description": "A Python package to study molecular relationship between environmental factors and rare diseases.",
"homepage": "https://pypi.org/project/ODAMNet/",
"biotoolsID": "odamnet",
"biotoolsCURIE": "biotools:odamnet",
"tool_type": [
"Command-line tool"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3325",
"http://edamontology.org/topic_0602"
],
"primary_publication": [],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [],
"name": "Morgane Térézol",
"email": "morgane.terezol@univ-amu.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-4090-2573",
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [],
"name": "Anaïs Baudot",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0003-0885-7933",
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [],
"name": "Ozan Ozisik",
"email": null,
"url": null,
"orcidid": "https://orcid.org/0000-0001-5980-8002",
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": null,
"documentation": "https://odamnet.readthedocs.io/en/latest/",
"maturity": null,
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T14:02:02.850639Z",
"teams": [],
"source_repository": "https://github.com/MOohTus/ODAMNet"
},
{
"id": 95,
"name": "RSAT oligo-analysis",
"description": "Compute k-mer frequencies (oligonucleotides or oligopeptides) and various statistics to discover exceptional motifs (over-represented or under-represented). Typical applications include discovery of transcription factor binding motifs, restriction sites in bacterial genomes, RNA termination and polyadenylation signals, detection of motifs associated with replication origins, analysis of oligopeptide frequencies in protein sequences.",
"homepage": "http://teaching.rsat.eu/oligo-analysis_form.cgi",
"biotoolsID": "oligo-analysis",
"biotoolsCURIE": "biotools:oligo-analysis",
"tool_type": [
"Web service",
"Web application",
"Command-line tool"
],
"collection": [
"elixir-fr-sdp-2019",
"FR",
"Regulatory Sequence Analysis Tools (RSAT)"
],
"scientific_topics": [
"http://edamontology.org/topic_0749",
"http://edamontology.org/topic_3510",
"http://edamontology.org/topic_0204",
"http://edamontology.org/topic_3511"
],
"primary_publication": [
"10.1006/jmbi.1998.1947"
],
"operating_system": [
"Linux",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Provider"
],
"name": "RSAT",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Maintainer"
],
"name": "Jacques van Helden",
"email": "Jacques.van-Helden@univ-amu.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-8799-8584",
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Jacques van Helden",
"email": "Jacques.van-Helden@univ-amu.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0002-8799-8584",
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "AFL-3.0",
"documentation": "http://rsat.eu/",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T20:59:23.505699Z",
"teams": [],
"source_repository": null
},
{
"id": 156,
"name": "ORDO",
"description": "The Orphanet Rare Disease Ontology (ORDO) - structured vocabulary for rare diseases, capturing relationships between diseases, genes and other relevant features. It integrates a classification of rare diseases, relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) and classifications (ICD10).",
"homepage": "http://www.ebi.ac.uk/ols/ontologies/ordo",
"biotoolsID": "ordo",
"biotoolsCURIE": "biotools:ordo",
"tool_type": [
"Ontology",
"Web application",
"Database portal"
],
"collection": [
"RD-connect",
"Rare Disease"
],
"scientific_topics": [
"http://edamontology.org/topic_3572",
"http://edamontology.org/topic_0089",
"http://edamontology.org/topic_3325",
"http://edamontology.org/topic_0634",
"http://edamontology.org/topic_3307"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Provider"
],
"name": "Inserm US14",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Contact Form",
"email": null,
"url": "https://www.ebi.ac.uk/support/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": null,
"email": "ols-submission@ebi.ac.uk",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "Apache-2.0",
"documentation": "https://www.ebi.ac.uk/ols/docs/index",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2020-09-16T07:06:49Z",
"teams": [
"Orphanet"
],
"source_repository": null
},
{
"id": 31,
"name": "Orphadata",
"description": "A comprehensive, high-quality and freely-accessible dataset related to rare diseases and orphan drugs, in a reusable format.",
"homepage": "http://www.orphadata.org/",
"biotoolsID": "orphadata",
"biotoolsCURIE": "biotools:orphadata",
"tool_type": [
"Database portal",
"Web API",
"SPARQL endpoint"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3325",
"http://edamontology.org/topic_0089",
"http://edamontology.org/topic_3068"
],
"primary_publication": [
"10.1002/humu.22078"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Provider"
],
"name": "Inserm US14",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Céline Rousselot",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": "Marc Hanauer",
"email": "marc.hanauer@inserm.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Provider"
],
"name": "Orphanet Inserm",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Samuel Demarest",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": "CC-BY-4.0",
"documentation": "http://www.orphadata.org/cgi-bin/index.php/",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-25T13:46:06.717312Z",
"teams": [],
"source_repository": null
},
{
"id": 32,
"name": "Orphanet",
"description": "Information on rare diseases and orphan drugs.",
"homepage": "http://www.orpha.net/consor/cgi-bin/index.php",
"biotoolsID": "orphanet",
"biotoolsCURIE": "biotools:orphanet",
"tool_type": [
"Database portal",
"Web application"
],
"collection": [
"Rare Disease",
"DRCAT"
],
"scientific_topics": [
"http://edamontology.org/topic_0154",
"http://edamontology.org/topic_0634",
"http://edamontology.org/topic_3325"
],
"primary_publication": [
"10.1002/humu.22078"
],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Provider"
],
"name": "Inserm US14",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Institute",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": null,
"email": null,
"url": "http://www.orpha.net/consor/cgi-bin/Directory_Contact.php?lng=EN",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "http://www.orpha.net/consor/cgi-bin/Education_EducationTools.php?stapage=HM_BLOC_HEADER_HELP_SITEMAP&lng=EN",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T20:58:27.798370Z",
"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": 65,
"name": "OrthoInspector",
"description": "Software system incorporating an original algorithm for the rapid detection of orthology and inparalogy relations between different species.",
"homepage": "http://lbgi.igbmc.fr/orthoinspector/",
"biotoolsID": "orthoinspector",
"biotoolsCURIE": "biotools:orthoinspector",
"tool_type": [
"Database portal",
"Desktop application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3053",
"http://edamontology.org/topic_3299"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Odile Lecompte",
"email": "odile.lecompte@unistra.fr",
"url": "http://alnitak.u-strasbg.fr/lbgi/",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "http://lbgi.igbmc.fr/orthoinspector/index.php?option=com_content&view=article&id=50:tutorial-prepare-data-to-create-your-own-database&catid=3:tutorials&Itemid=6",
"maturity": null,
"cost": null,
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-24T13:55:18.202290Z",
"teams": [
"BiGEst"
],
"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": 264,
"name": "PanExplorer",
"description": "A web-based tool for exploratory analysis and visualization of bacterial pan-genomes.",
"homepage": "http://panexplorer.southgreen.fr",
"biotoolsID": "panexplorer",
"biotoolsCURIE": "biotools:panexplorer",
"tool_type": [
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_3382",
"http://edamontology.org/topic_3299",
"http://edamontology.org/topic_3175"
],
"primary_publication": [],
"operating_system": [
"Mac",
"Linux",
"Windows"
],
"tool_credit": [
{
"type_role": [],
"name": "Alexis Dereeper",
"email": "alexis.dereeper@ird.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0001-8120-8409",
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Damien F Meyer",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
},
{
"type_role": [],
"name": "Marilyne Summo",
"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": "2024-11-24T15:26:52.796766Z",
"teams": [
"South Green"
],
"source_repository": "https://github.com/SouthGreenPlatform/PanExplorer"
},
{
"id": 126,
"name": "PanGeneHome",
"description": "PanGeneHome is a web server dedicated to the analysis of available microbial pangenomes. Several standalone tools (e.g. PGAP, PANNOTATOR, PanGP, Roary and BPGA) and web servers (e.g. Panseq, PGAT and PanWeb) dedicated to pangenome analysis have been developed recently and offer the possibility to compute pangenome analysis for genomes provided by a user. For all these tools and servers, users have to collect genomes and manage to run the tools, which implies a significant effort on the user side. To tackle this problem, we developped PanGeneHome, the only web site offering pre-computed pangenome analysis with up-to-date and large scale data. PanGeneHome provides an easy way to get a glimpse on the pangenome of a microbial group of interest, the analysis being precomputed and available for 615 taxa, covering 182 species and 49 orders. Considering the fast growing number of microbial genomes, the PanGeneHome tool will need to be updated regularly.",
"homepage": "http://pangenehome.lmge.uca.fr/",
"biotoolsID": "PanGeneHome",
"biotoolsCURIE": "biotools:PanGeneHome",
"tool_type": [
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_0602",
"http://edamontology.org/topic_3407",
"http://edamontology.org/topic_0154"
],
"primary_publication": [],
"operating_system": [
"Mac",
"Linux",
"Windows"
],
"tool_credit": [],
"tool_licence": null,
"documentation": null,
"maturity": null,
"cost": "Free of charge",
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2024-11-24T14:48:31.897688Z",
"teams": [
"AuBi"
],
"source_repository": null
},
{
"id": 280,
"name": "Paraload",
"description": "Paraload is an original utility which ensures job distribution between thousands of processors, according to the type of the data to be analysed.",
"homepage": "ftp://doua.prabi.fr/pub/logiciel/paraload",
"biotoolsID": "Paraload",
"biotoolsCURIE": "biotools:Paraload",
"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": "2019-11-06T12:00:30Z",
"teams": [
"PRABI-AMSB"
],
"source_repository": null
},
{
"id": 113,
"name": "ParameciumDB",
"description": "Online community database for Paramecium species. Contains annotation of genome sequences and features, genome-wide data sets, advanced capabilities to query, retrieve, visualize and compare data.",
"homepage": "https://paramecium.i2bc.paris-saclay.fr",
"biotoolsID": "parameciumdb",
"biotoolsCURIE": "biotools:parameciumdb",
"tool_type": [
"Database portal"
],
"collection": [
"elixir-fr-sdp-2019"
],
"scientific_topics": [
"http://edamontology.org/topic_0089",
"http://edamontology.org/topic_3321",
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_0160",
"http://edamontology.org/topic_0080"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Contact Form",
"email": null,
"url": "https://paramecium.i2bc.paris-saclay.fr/cgi/user/contact",
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [],
"name": "Terms of Use",
"email": null,
"url": "https://paramecium.i2bc.paris-saclay.fr/parawiki/Terms_of_Use",
"orcidid": null,
"gridid": null,
"typeEntity": null,
"note": null
}
],
"tool_licence": "CC-BY-4.0",
"documentation": null,
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
"annual_visits": null,
"last_update": "2024-11-25T14:00:30.463079Z",
"teams": [],
"source_repository": null
},
{
"id": 163,
"name": "PEP-FOLD",
"description": "PEP-FOLD uses a hidden Markov model-derived structural alphabet for de novo modeling of 3D conformations of peptides between 9-25 amino acids in aqueous solution. Updates to PEP-FOLD allow for modeling of linear and disulphide bonded cyclic peptides with 9-36 amino acids using benchmarked peptides.",
"homepage": "https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::PEP-FOLD3",
"biotoolsID": "pep-fold",
"biotoolsCURIE": "biotools:pep-fold",
"tool_type": [
"Web application"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_2275"
],
"primary_publication": [
"10.1093/nar/gkp323",
"10.1093/nar/gks419",
"10.1093/nar/gkw329"
],
"operating_system": [],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Pierre Tufféry",
"email": "pierre.tuffery@univ-paris-diderot.fr",
"url": null,
"orcidid": "https://orcid.org/0000-0003-1033-9895",
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "Freeware",
"documentation": "https://bioserv.rpbs.univ-paris-diderot.fr/services/PEP-FOLD3",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": 3900,
"citations": null,
"annual_visits": 30000,
"last_update": "2024-11-24T20:59:57.942237Z",
"teams": [
"RPBS"
],
"source_repository": null
},
{
"id": 149,
"name": "PepPSy",
"description": "A gene expression-based prioritization system to help investigators to determine in which human tissues they should look for an unseen protein.",
"homepage": "http://peppsy.genouest.org",
"biotoolsID": "peppsy",
"biotoolsCURIE": "biotools:peppsy",
"tool_type": [
"Web application"
],
"collection": [
"Proteomics"
],
"scientific_topics": [
"http://edamontology.org/topic_3308",
"http://edamontology.org/topic_0121"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Developer"
],
"name": "Thomas Darde",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Developer"
],
"name": "Olivier Sallou",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Maintainer"
],
"name": "Frédéric Chalmel",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Olivier Collin",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Paula P. Duek",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Primary contact"
],
"name": null,
"email": "frederic.chalmel@univ-rennes1.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
},
{
"type_role": [
"Contributor"
],
"name": "Lydie Lane",
"email": null,
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": null,
"documentation": "http://peppsy.genouest.org/help",
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": 0,
"citations": null,
"annual_visits": 0,
"last_update": "2024-11-25T14:12:40.921423Z",
"teams": [
"GenOuest"
],
"source_repository": null
}
]
}