{"count":233,"next":"https://catalogue.france-bioinformatique.fr/api/tool/?format=json&limit=20&offset=200&ordering=-tool_licence","previous":"https://catalogue.france-bioinformatique.fr/api/tool/?format=json&limit=20&offset=160&ordering=-tool_licence","results":[{"id":109,"name":"RSAT dyad-analysis","description":"Detect over- or under-represented dyads (spaced pairs of k-mers) in sequences.","homepage":"http://teaching.rsat.eu/dyad-analysis_form.cgi","biotoolsID":"RSAT_dyad-analysis","biotoolsCURIE":"biotools:RSAT_dyad-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_3511","http://edamontology.org/topic_0204","http://edamontology.org/topic_0749"],"primary_publication":["10.1093/nar/28.8.1808"],"operating_system":["Linux","Mac"],"tool_credit":[{"type_role":[],"name":"Université Libre de Bruxelles","email":null,"url":"https://www.ulb.be/","orcidid":null,"gridid":"grid.4989.c","typeEntity":"Institute","note":null},{"type_role":[],"name":"UNAM","email":null,"url":null,"orcidid":null,"gridid":"grid.9486.3","typeEntity":"Institute","note":null},{"type_role":["Primary contact","Developer","Documentor","Maintainer","Support","Provider"],"name":"Jacques van Helden","email":null,"url":null,"orcidid":"https://orcid.org/0000-0002-8799-8584","gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"AFL-3.0","documentation":"https://rsat-doc.github.io/using-RSAT/","maturity":"Mature","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2020-06-16T10:55:27Z","teams":[],"source_repository":"https://github.com/rsat-doc"},{"id":108,"name":"RSAT position-analysis","description":"Detect oligomers (k-mers) whose positional distribution significantly discard from a homogeneous distribution.","homepage":"http://teaching.rsat.eu/position-analysis_form.cgi","biotoolsID":"RSAT-position-analysis","biotoolsCURIE":"biotools:RSAT-position-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_3511","http://edamontology.org/topic_0204","http://edamontology.org/topic_0749"],"primary_publication":["10.1093/nar/28.4.1000"],"operating_system":["Linux","Mac"],"tool_credit":[{"type_role":[],"name":"Université Libre de Bruxelles","email":null,"url":"https://www.ulb.be/","orcidid":null,"gridid":"grid.4989.c","typeEntity":"Institute","note":null},{"type_role":["Primary contact","Developer","Documentor","Maintainer","Support","Provider"],"name":"Jacques van Helden","email":null,"url":null,"orcidid":"https://orcid.org/0000-0002-8799-8584","gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"AFL-3.0","documentation":"https://rsat-doc.github.io/using-RSAT/","maturity":"Mature","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2020-06-16T10:55:27Z","teams":[],"source_repository":"https://github.com/rsat-doc"},{"id":110,"name":"RSAT retrieve-ensembl-seq","description":"Returns upstream, downstream, intronic, exonic, UTR, transcript, mRNA, CDS or gene sequences for a list of genes from the EnsEMBL database.\nMulti-genome queries are supported: automatic retrieval of sequences for all the orthologs of the query genes, at a given taxonomical level.","homepage":"http://rsat.sb-roscoff.fr/retrieve-ensembl-seq_form.cgi","biotoolsID":"rsat-retrieve-ensembl-seq","biotoolsCURIE":"biotools:rsat-retrieve-ensembl-seq","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_3511","http://edamontology.org/topic_0204","http://edamontology.org/topic_0749"],"primary_publication":["10.1093/bioinformatics/btp519"],"operating_system":["Linux","Mac"],"tool_credit":[{"type_role":["Primary contact","Developer","Documentor","Maintainer","Support"],"name":"Olivier Sand","email":null,"url":null,"orcidid":"https://orcid.org/0000-0003-1465-1640","gridid":null,"typeEntity":"Person","note":null},{"type_role":[],"name":"Université Libre de Bruxelles","email":null,"url":"https://www.ulb.be/","orcidid":null,"gridid":"grid.4989.c","typeEntity":"Institute","note":null},{"type_role":["Developer"],"name":"Morgane Thomas-Chollier","email":null,"url":null,"orcidid":"https://orcid.org/0000-0003-2608-476X","gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"AFL-3.0","documentation":"https://rsat-doc.github.io/using-RSAT/","maturity":"Mature","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2020-06-16T10:55:27Z","teams":[],"source_repository":"https://github.com/rsat-doc"},{"id":176,"name":"Galaxy","description":"Open, web-based platform for data intensive biomedical research. Whether on the free public server or your own instance, you can perform, reproduce, and share complete analyses.","homepage":"https://galaxyproject.org/","biotoolsID":"galaxy","biotoolsCURIE":"biotools:galaxy","tool_type":["Bioinformatics portal","Web API","Web application","Workflow"],"collection":["Animal and Crop Genomics","Galaxy"],"scientific_topics":["http://edamontology.org/topic_0085","http://edamontology.org/topic_3673","http://edamontology.org/topic_0797","http://edamontology.org/topic_0622","http://edamontology.org/topic_0196"],"primary_publication":["10.1093/nar/gkw343","10.1093/nar/gkac247"],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Contributor"],"name":"Galaxy Community","email":null,"url":null,"orcidid":null,"gridid":null,"typeEntity":"Consortium","note":null},{"type_role":["Primary contact"],"name":"Galaxy support","email":null,"url":"https://biostar.usegalaxy.org/","orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"AFL-3.0","documentation":"https://usegalaxy.org/api/docs","maturity":"Mature","cost":"Free of charge","unique_visits":400,"citations":null,"annual_visits":0,"last_update":"2024-11-24T14:46:57.861339Z","teams":["South Green"],"source_repository":"https://github.com/galaxyproject/galaxy"},{"id":69,"name":"WheatIS","description":"This project aims at building an International Wheat Information System (WheatIS) to support the wheat research community. The main objective is to provide a single-access web based system to access to the available data resources and bioinformatics tools. The web portal indexes and makes findable any kind of data from wheat related species. \nThe WheatIS search is an implementation of DataDiscovery.","homepage":"https://urgi.versailles.inrae.fr/wheatis/","biotoolsID":"WheatIS","biotoolsCURIE":"biotools:WheatIS","tool_type":["Database portal","Web service","Web API","Web application"],"collection":["elixir-fr-sdp-2019","URGI"],"scientific_topics":["http://edamontology.org/topic_0091","http://edamontology.org/topic_0780","http://edamontology.org/topic_3071","http://edamontology.org/topic_0610","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.inra.fr/wheatis/about","maturity":"Mature","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2021-02-15T15:54:13Z","teams":["URGI"],"source_repository":null},{"id":90,"name":"FAIDARE","description":"FAIDARE: FAIR Data-finder for Agronomic Research. \nThe purpose of this portal is to facilitate the discoverability of public data on plant biology from a federation of established data repositories.\n\nIt is based on the Breeding API (BrAPI) specifications and facilitates the access to genotype and phenotype datasets for crop and forest plants through an easy to use web interface. It also provides a standard interface that can be accessed programatically through web services.\n\nIt is an extension of the generic DataDiscovery portal, a web portal that allows finding any type of data across several databases through a lightweight keyword based search. FAIDARE offers more detailed search and data retrieval capabilities and it takes advantage of the growing adoption of the BrAPI.","homepage":"https://urgi.versailles.inrae.fr/faidare/","biotoolsID":"faidare","biotoolsCURIE":"biotools:faidare","tool_type":["Database portal","Web service","Web API","Web application"],"collection":["elixir-fr-sdp-2019","URGI"],"scientific_topics":["http://edamontology.org/topic_0625","http://edamontology.org/topic_0091","http://edamontology.org/topic_0780","http://edamontology.org/topic_3071","http://edamontology.org/topic_0610","http://edamontology.org/topic_3810"],"primary_publication":[],"operating_system":["Linux"],"tool_credit":[{"type_role":["Primary contact","Support"],"name":"URGI support","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/faidare/help","maturity":"Emerging","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2024-09-02T05:04:34.812991Z","teams":["URGI"],"source_repository":"https://forgemia.inra.fr/urgi-is/faidare"},{"id":91,"name":"DataDiscovery","description":"DataDiscovery aims at providing researchers a simple and fast access to relevant biological data using specific keywords and easy to use filters.\n\nThis tool is expected to be easily customizable for specific filters, environments, or data schemas. Its current implementations supported by URGI are: WheatIS, Plant, RARe.","homepage":"https://urgi.versailles.inrae.fr/data-discovery/","biotoolsID":"DataDiscovery","biotoolsCURIE":"biotools:DataDiscovery","tool_type":["Database portal","Web service","Web API","Web application"],"collection":["elixir-fr-sdp-2019","URGI","FR"],"scientific_topics":["http://edamontology.org/topic_0091","http://edamontology.org/topic_0780","http://edamontology.org/topic_3071","http://edamontology.org/topic_0610","http://edamontology.org/topic_3810"],"primary_publication":["10.3835/plantgenome2015.06.0038"],"operating_system":["Linux"],"tool_credit":[{"type_role":["Primary contact","Support"],"name":"urgi-support","email":"urgi-support@inrae.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":null,"note":null}],"tool_licence":"BSD-3-Clause","documentation":"https://forgemia.inra.fr/urgi-is/data-discovery/blob/master/HELP.md","maturity":"Emerging","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2025-07-29T13:42:39.375595Z","teams":["URGI"],"source_repository":"https://forgemia.inra.fr/urgi-is/data-discovery"},{"id":92,"name":"RARe","description":"RARe is a research infrastructure registered on the french national roadmap that brings together five networks of BRCs conserving genetic, genomic, and biological resources assembled and characterized by research on domestic animals, model or cultivated plants, wild species related to domestic animals, forest trees, micro-organisms of agronomic or agri-food interest, micro-organisms and environmental organisms.\nThe purpose of this web portal is to facilitate the discoverability of these data. \nRARe search is an implementation of DataDiscovery.","homepage":"https://urgi.versailles.inrae.fr/rare/","biotoolsID":"RARe","biotoolsCURIE":"biotools:RARe","tool_type":["Database portal","Web service","Web API","Web application"],"collection":["elixir-fr-sdp-2019","URGI"],"scientific_topics":["http://edamontology.org/topic_0091","http://edamontology.org/topic_0780","http://edamontology.org/topic_3071","http://edamontology.org/topic_0610","http://edamontology.org/topic_3810"],"primary_publication":[],"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/rare/about","maturity":"Emerging","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2025-07-29T13:42:40.608985Z","teams":["URGI"],"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_0091","http://edamontology.org/topic_0780","http://edamontology.org/topic_3071","http://edamontology.org/topic_0610","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":152,"name":"PipeAlign2","description":"Takes one or more protein sequences as input and analyzes them in a five-step process during which searches for sequence homologues, analyses of multiple sequence alignments, and hierarchical relationships between protein subfamilies are performed.","homepage":"http://www.lbgi.fr/pipealign","biotoolsID":"pipealign","biotoolsCURIE":"biotools:pipealign","tool_type":["Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0157","http://edamontology.org/topic_3510","http://edamontology.org/topic_0080","http://edamontology.org/topic_3168","http://edamontology.org/topic_0078"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":null,"email":"akress@unistra.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"Unlicense","documentation":null,"maturity":"Mature","cost":"Free of charge","unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2024-11-24T21:03:24.978595Z","teams":["BiGEst"],"source_repository":null},{"id":146,"name":"fqtools","description":"A package that provides tools for efficient FASTQ files manipulation.","homepage":"https://bioweb.pasteur.fr/packages/pack@fqtools@1.1","biotoolsID":"fqtools","biotoolsCURIE":"biotools:fqtools","tool_type":["Suite"],"collection":["fqtools"],"scientific_topics":["http://edamontology.org/topic_0080"],"primary_publication":[],"operating_system":[],"tool_credit":[{"type_role":["Primary contact","Maintainer"],"name":"Nicolas Joly","email":"njoly@pasteur.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"Unlicense","documentation":null,"maturity":"Mature","cost":"Free of charge","unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2020-06-16T10:55:24Z","teams":["Pasteur HUB"],"source_repository":"ftp://ftp.pasteur.fr/pub/gensoft/projects/fqtools/README"},{"id":190,"name":"CRISPRFinder","description":"Detects this family of direct repeats found in the DNA of many bacteria and archaea.","homepage":"https://crisprcas.i2bc.paris-saclay.fr/CrisprCasFinder/Index","biotoolsID":"crisprfinder","biotoolsCURIE":"biotools:crisprfinder","tool_type":["Database portal","Web application"],"collection":["CRISPR"],"scientific_topics":["http://edamontology.org/topic_2885","http://edamontology.org/topic_0157","http://edamontology.org/topic_0203","http://edamontology.org/topic_0621","http://edamontology.org/topic_0749"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"Marie Touchon","email":"mtouchon@pasteur.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"Unlicense","documentation":null,"maturity":"Mature","cost":"Free of charge","unique_visits":480,"citations":null,"annual_visits":2273,"last_update":"2024-11-24T21:05:00.924973Z","teams":["EBIO"],"source_repository":null},{"id":134,"name":"Protomata","description":"Motif search and discovery in protein sequences.","homepage":"http://tools.genouest.org/tools/protomata/","biotoolsID":"protomata","biotoolsCURIE":"biotools:protomata","tool_type":["Web application","Command-line tool"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0080"],"primary_publication":["10.1007/11564096_50"],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"GenOuest","email":"support@genouest.org","url":"http://www.genouest.org","orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Provider"],"name":"GenOuest","email":null,"url":null,"orcidid":null,"gridid":null,"typeEntity":"Institute","note":null}],"tool_licence":"CECILL-2.0","documentation":"http://tools.genouest.org/tools/protomata/help","maturity":"Mature","cost":"Free of charge","unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2018-12-10T12:58:49Z","teams":["GenOuest"],"source_repository":null},{"id":105,"name":"REPET","description":"The REPET package integrates bioinformatics pipelines dedicated to detect, annotate and analyze transposable elements (TEs) in genomic sequences. The main pipelines are (i) TEdenovo, which search for interspersed repeats, build consensus sequences and classify them according to TE features, and (ii)\n TEannot, which mines a genome with a library of TE sequences, for instance the one produced by the TEdenovo pipeline, to provide TE annotations exported into GFF3 files.","homepage":"https://urgi.versailles.inrae.fr/Tools/REPET","biotoolsID":"repet","biotoolsCURIE":"biotools:repet","tool_type":["Command-line tool"],"collection":["elixir-fr-sdp-2019","URGI","REPET","PlantBioinfoPF"],"scientific_topics":["http://edamontology.org/topic_0157","http://edamontology.org/topic_0097","http://edamontology.org/topic_0654"],"primary_publication":["10.1007/s00239-003-0007-2","10.1371/journal.pone.0091929","10.1371/journal.pone.0016526","10.1371/journal.pcbi.0010022"],"operating_system":["Linux","Mac"],"tool_credit":[{"type_role":["Developer","Contributor","Maintainer","Provider","Support","Documentor"],"name":"URGI","email":"urgi-repet@versailles.inra.fr","url":"http://urgi.versailles.inra.fr/","orcidid":null,"gridid":null,"typeEntity":"Institute","note":"This tool has a \"Numero de depot APP\": FR 001 480007 000 R P 2008 000 31 235"},{"type_role":["Developer","Contributor","Maintainer","Provider","Support","Documentor"],"name":"URGI","email":"urgi-repet@versailles.inrae.fr","url":"http://urgi.versailles.inrae.fr/","orcidid":null,"gridid":null,"typeEntity":"Institute","note":"This tool has a \"Numero de depot APP\": FR 001 480007 000 R P 2008 000 31 235"}],"tool_licence":"CECILL-2.0","documentation":"https://urgi.versailles.inrae.fr/Tools/REPET","maturity":"Legacy","cost":"Free of charge","unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2025-09-09T08:10:41.737859Z","teams":["URGI"],"source_repository":"https://urgi.versailles.inrae.fr/download/repet/"},{"id":132,"name":"Minia","description":"Short-read assembler based on a de Bruijn graph, capable of assembling a human genome on a desktop computer in a day.","homepage":"http://minia.genouest.org/","biotoolsID":"minia","biotoolsCURIE":"biotools:minia","tool_type":["Command-line tool"],"collection":["GATB"],"scientific_topics":["http://edamontology.org/topic_0196"],"primary_publication":["10.1186/1748-7188-9-2"],"operating_system":["Linux"],"tool_credit":[{"type_role":["Primary contact"],"name":"Rayan Chikhi","email":"chikhi@psu.edu","url":"http://rayan.chikhi.name","orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Primary contact"],"name":"Guillaume Rizk","email":"guillaume.rizk@irisa.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Provider"],"name":"GenOuest","email":null,"url":null,"orcidid":null,"gridid":null,"typeEntity":"Institute","note":null}],"tool_licence":"CECILL-2.0","documentation":"http://minia.genouest.org/files/minia.pdf","maturity":"Mature","cost":"Free of charge","unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2024-11-24T14:36:01.515486Z","teams":["GenOuest"],"source_repository":null},{"id":175,"name":"Logol","description":"Pattern matching grammar language and a set of tools to search a pattern in a sequence (nucleic or proteic).","homepage":"http://logol.genouest.org","biotoolsID":"logol","biotoolsCURIE":"biotools:logol","tool_type":["Web application","Command-line tool"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0160"],"primary_publication":["10.1007/978-3-319-09192-1_4"],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"GenOuest","email":"support@genouest.org","url":"http://www.genouest.org","orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Provider"],"name":"GenOuest","email":null,"url":null,"orcidid":null,"gridid":null,"typeEntity":"Institute","note":null}],"tool_licence":"CECILL-2.0","documentation":"http://training.genouest.org/claroline/claroline/learnPath/learningPathList.php?cidReset=true&cidReq=LOGOL","maturity":"Emerging","cost":"Free of charge","unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2018-12-10T12:58:34Z","teams":["GenOuest"],"source_repository":null},{"id":166,"name":"CRAC","description":"CRAC is a mapping software specialized for RNA-Seq data. It detects mutations, indels, splice or fusion junctions in each single read.","homepage":"http://crac.gforge.inria.fr","biotoolsID":"crac","biotoolsCURIE":"biotools:crac","tool_type":["Command-line tool"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0114","http://edamontology.org/topic_3170","http://edamontology.org/topic_3320"],"primary_publication":["10.1186/gb-2013-14-3-r30"],"operating_system":["Linux","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"For question regarding the software","email":"crac-bugs@lists.gforge.inria.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Primary contact"],"name":"For questions, comments, remarks on the algorithm or the article","email":"crac-article@lists.gforge.inria.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"CECILL-2.0","documentation":"http://crac.gforge.inria.fr/documentation/","maturity":"Mature","cost":null,"unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2018-12-10T12:58:59Z","teams":["ATGC","Bilille"],"source_repository":null},{"id":159,"name":"SABBAC","description":"Tool for the reconstruction of complete protein structures from their alpha-carbon descriptions.","homepage":"https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::SABBAC","biotoolsID":"sabbac","biotoolsCURIE":"biotools:sabbac","tool_type":["Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_2275"],"primary_publication":[],"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/SABBAC/","maturity":"Mature","cost":"Free of charge","unique_visits":130,"citations":null,"annual_visits":640,"last_update":"2024-11-24T21:00:10.511557Z","teams":["RPBS"],"source_repository":null},{"id":158,"name":"Fpocket","description":"Web server which detects small molecule pockets by relying on the geometric alpha sphere theory. It also tracks pockets during molecular dynamics so to provide insight on pocket dynamics (mdpocket) and transposes mdpocket to the combined analysis of homologous structures (hpocket).","homepage":"https://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::fpocket","biotoolsID":"fpocket","biotoolsCURIE":"biotools:fpocket","tool_type":["Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0166"],"primary_publication":["10.1186/1471-2105-10-168"],"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/fpocket/","maturity":"Mature","cost":"Free of charge","unique_visits":960,"citations":null,"annual_visits":2470,"last_update":"2024-11-24T20:59:53.208420Z","teams":["RPBS"],"source_repository":null},{"id":160,"name":"Frog","description":"Frog2 (Free Online Drug Conformation 2) is a service aimed at generating 3D conformations for small molecules starting from their 1D, 2D or 3D descriptions (smiles, sdf or mol2 input formats). Frog2 improves upon Frog1 by embedding new energy minimization and ring generation capacities.","homepage":"https://mobyle2.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::Frog2","biotoolsID":"frog2","biotoolsCURIE":"biotools:frog2","tool_type":["Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0154","http://edamontology.org/topic_2275"],"primary_publication":["10.1093/nar/gkq325"],"operating_system":[],"tool_credit":[{"type_role":["Primary contact"],"name":"Frederic Guyon","email":"frederic.guyon@univ-paris-diderot.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Primary contact"],"name":"Maria A. Miteva","email":"maria.mitev@inserm.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"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/Frog2/","maturity":"Mature","cost":"Free of charge","unique_visits":960,"citations":null,"annual_visits":6400,"last_update":"2026-03-19T13:27:15.551602Z","teams":["RPBS"],"source_repository":null}]}