{"count":238,"next":null,"previous":"https://catalogue.france-bioinformatique.fr/api/tool/?format=json&limit=20&offset=200&ordering=cost","results":[{"id":131,"name":"jvenn","description":"Plug-in for the jQuery Javascript library. It is an integrative tool for comparing lists with Venn Diagrams.","homepage":"http://bioinfo.genotoul.fr/jvenn/","biotoolsID":"jvenn","biotoolsCURIE":"biotools:jvenn","tool_type":["Command-line tool"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0092","http://edamontology.org/topic_2269"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":null,"email":"support.genopole@toulouse.inra.fr","url":"http://bioinfo.genotoul.fr/jvenn/index.html","orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"http://jvenn.toulouse.inra.fr/app/index.html","maturity":null,"cost":null,"unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2024-11-25T14:53:20.499445Z","teams":[],"source_repository":null},{"id":187,"name":"Nebula","description":"Web service powered by Galaxy which allows users (Bioinformaticians as far as Biologists) to analyze their ChIP-seq data.","homepage":"https://nebula.curie.fr/","biotoolsID":"nebula","biotoolsCURIE":"biotools:nebula","tool_type":["Web application"],"collection":["Nebula"],"scientific_topics":["http://edamontology.org/topic_3365","http://edamontology.org/topic_3125","http://edamontology.org/topic_3169"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":null,"email":"galaxy.contact@curie.fr","url":"http://bioinfo-out.curie.fr/","orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"http://nebula.curie.fr/static/nebula_tutorial.pdf","maturity":null,"cost":null,"unique_visits":7384,"citations":null,"annual_visits":2815653,"last_update":"2024-11-25T14:22:06.393280Z","teams":["Institut Curie - Bioinformatique"],"source_repository":null},{"id":147,"name":"SortMeRNA","description":"Sequence analysis tool for filtering, mapping and OTU-picking NGS reads.","homepage":"https://bioinfo.cristal.univ-lille.fr/RNA/sortmerna/","biotoolsID":"sortmerna","biotoolsCURIE":"biotools:sortmerna","tool_type":["Web application","Command-line tool"],"collection":["ELIXIR Trainer Tools"],"scientific_topics":["http://edamontology.org/topic_3941","http://edamontology.org/topic_3174","http://edamontology.org/topic_3308"],"primary_publication":[],"operating_system":["Linux","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":null,"email":null,"url":"https://github.com/sortmerna/sortmerna/issues","orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Primary contact"],"name":null,"email":null,"url":"https://github.com/biocore/sortmerna/issues","orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"https://github.com/sortmerna/sortmerna/wiki/User-manual-v4.3.2","maturity":null,"cost":null,"unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2024-11-24T14:49:42.747317Z","teams":["Bilille"],"source_repository":null},{"id":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":188,"name":"SyntTax","description":"A web server linking synteny to prokaryotic taxonomy.","homepage":"http://archaea.u-psud.fr/SyntTax/","biotoolsID":"synttax","biotoolsCURIE":"biotools:synttax","tool_type":["Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0204","http://edamontology.org/topic_0637","http://edamontology.org/topic_3053"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"Jacques Oberto","email":"jacques.oberto@igmors.u-psud.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"http://archaea.u-psud.fr/SyntTax/SyntTax_Help.html","maturity":null,"cost":null,"unique_visits":1707,"citations":null,"annual_visits":3829,"last_update":"2018-12-10T12:58:58Z","teams":["EBIO"],"source_repository":null},{"id":19,"name":"PhylOPDb","description":"Phylogenetic Oligonucleotide Probe Database. Provides a convivial and easy-to-use web interface to browse both regular and explorative 16S rRNA-targeted probes.","homepage":"http://g2im.u-clermont1.fr/phylopdb/help.php","biotoolsID":"phylopdb","biotoolsCURIE":"biotools:phylopdb","tool_type":["Database portal","Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_3518","http://edamontology.org/topic_0632","http://edamontology.org/topic_3293"],"primary_publication":[],"operating_system":[],"tool_credit":[{"type_role":["Primary contact"],"name":null,"email":"pierre.peyret@udamail.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"http://g2im.u-clermont1.fr/phylopdb/help.php","maturity":null,"cost":null,"unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2018-12-10T12:58:58Z","teams":[],"source_repository":null},{"id":249,"name":"FROGS","description":"The user-friendly and Galaxy-supported pipeline FROGS analyses large sets of DNA amplicons sequences accurately and rapidly, essential for microbe community studies.","homepage":"http://frogs.toulouse.inra.fr/","biotoolsID":"frogs","biotoolsCURIE":"biotools:frogs","tool_type":["Command-line tool"],"collection":["FROGS"],"scientific_topics":["http://edamontology.org/topic_3697","http://edamontology.org/topic_3299","http://edamontology.org/topic_3174","http://edamontology.org/topic_3168","http://edamontology.org/topic_0637"],"primary_publication":["10.1093/bioinformatics/btx791","10.1093/bib/bbab318"],"operating_system":["Linux"],"tool_credit":[{"type_role":["Primary contact"],"name":"Géraldine Pascal","email":"geraldine.pascal@inra.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null},{"type_role":["Primary contact"],"name":"Géraldine Pascal","email":"geraldine.pascal@inrae.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"https://github.com/geraldinepascal/FROGS","maturity":null,"cost":null,"unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2024-11-24T20:07:18.846597Z","teams":["MIGALE"],"source_repository":"https://github.com/geraldinepascal/FROGS"},{"id":55,"name":"GAG","description":"Generates an NCBI .tbl file of annotations on a genome.","homepage":"https://github.com/genomeannotation/GAG","biotoolsID":"gag","biotoolsCURIE":"biotools:gag","tool_type":["Database portal","Command-line tool"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0077","http://edamontology.org/topic_3673","http://edamontology.org/topic_0622"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"Scott M Geib","email":"scott.geib@ars.usda.gov","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"MIT","documentation":"https://github.com/genomeannotation/GAG","maturity":null,"cost":null,"unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2024-11-24T20:31:52.130383Z","teams":[],"source_repository":null},{"id":115,"name":"GalaxyCat","description":"An online catalog that lists all the tools available on various Galaxy instances and thus allows through a simple web interface to quickly find on which instances a tool is usable.","homepage":"http://galaxycat.france-bioinformatique.fr/","biotoolsID":"GalaxyCat","biotoolsCURIE":"biotools:GalaxyCat","tool_type":[],"collection":["elixir-fr-sdp-2019"],"scientific_topics":["http://edamontology.org/topic_0091"],"primary_publication":[],"operating_system":[],"tool_credit":[],"tool_licence":null,"documentation":null,"maturity":null,"cost":null,"unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2020-01-24T09:54:19Z","teams":[],"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_3382","http://edamontology.org/topic_0097","http://edamontology.org/topic_2229"],"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":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":185,"name":"GPCRautomodel","description":"Allows the user to upload a GPCR sequence, choose a ligand in a library and obtain the 3D structure of the free receptor and ligand-receptor complex.","homepage":"http://genome.jouy.inra.fr/GPCRautomodel","biotoolsID":"gpcrautomodel","biotoolsCURIE":"biotools:gpcrautomodel","tool_type":["Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0082","http://edamontology.org/topic_0078","http://edamontology.org/topic_0128"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"Jean-François Gibrat","email":"jean-francois.gibrat@jouy.inra.fr","url":"http://genome.jouy.inra.fr/GPCRautomdl/cgi-bin/welcome.pl","orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":null,"maturity":null,"cost":null,"unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2024-11-25T16:14:23.225464Z","teams":["MIGALE"],"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_1775","http://edamontology.org/topic_0128","http://edamontology.org/topic_0602"],"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":118,"name":"SouthGreen_Galaxy Not found.","description":"A Galaxy instance focused on agriculture, food, biodiversity and environment, from the Agropolis campus in France.","homepage":"http://galaxy.southgreen.fr/galaxy","biotoolsID":"SouthGreen_Galaxy","biotoolsCURIE":"biotools:SouthGreen_Galaxy","tool_type":["Workbench"],"collection":["elixir-fr-sdp-2019"],"scientific_topics":["http://edamontology.org/topic_3810"],"primary_publication":[],"operating_system":[],"tool_credit":[],"tool_licence":null,"documentation":"https://southgreen.fr/content/galaxy-tool","maturity":null,"cost":null,"unique_visits":null,"citations":null,"annual_visits":null,"last_update":"2020-01-24T09:53:10Z","teams":[],"source_repository":null},{"id":127,"name":"DiNAMO","description":"The DiNAMO software implements an exhaustive algorithm to detect over-represented IUPAC motifs in a set of DNA sequences.","homepage":"https://github.com/bonsai-team/DiNAMO","biotoolsID":"dinamo","biotoolsCURIE":"biotools:dinamo","tool_type":["Command-line tool","Library"],"collection":[],"scientific_topics":["http://edamontology.org/topic_3169","http://edamontology.org/topic_0160","http://edamontology.org/topic_3168"],"primary_publication":["10.1186/s12859-018-2215-1"],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"Chadi Saad","email":"chadi.saad@univ-lille1.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":"GPL-3.0","documentation":"https://github.com/bonsai-team/DiNAMO/blob/master/README.md","maturity":null,"cost":null,"unique_visits":0,"citations":null,"annual_visits":0,"last_update":"2024-11-25T14:31:44.889611Z","teams":["Bilille"],"source_repository":null},{"id":5,"name":"AgroLD","description":"The RDF Knowledge-based Database for plant molecular networks.","homepage":"http://agrold.southgreen.fr/agrold/","biotoolsID":"AgroLD","biotoolsCURIE":"biotools:AgroLD","tool_type":["Database portal"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0602","http://edamontology.org/topic_3810"],"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":"2019-11-05T14:52:28Z","teams":["South Green"],"source_repository":null},{"id":141,"name":"DroPNet","description":"DroPNet is a webserver for generating and analyzing Drosophila protein-protein interaction networks. Input data is a list of genes from an experiment such as RNAi screen.","homepage":"http://dropnet.isima.fr","biotoolsID":"dropnet","biotoolsCURIE":"biotools:dropnet","tool_type":["Web application"],"collection":[],"scientific_topics":["http://edamontology.org/topic_3523","http://edamontology.org/topic_3678","http://edamontology.org/topic_3957","http://edamontology.org/topic_0128","http://edamontology.org/topic_0602"],"primary_publication":[],"operating_system":["Linux","Windows","Mac"],"tool_credit":[{"type_role":["Primary contact"],"name":"RENAUD Yoan","email":"renaud@isima.fr","url":null,"orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"https://dropnet.gred-clermont.fr/DroPNet_project/UserManual.pdf","maturity":null,"cost":null,"unique_visits":0,"citations":null,"annual_visits":72000,"last_update":"2018-12-10T12:58:56Z","teams":["AuBi"],"source_repository":null},{"id":189,"name":"Erpin","description":"Easy RNA Profile IdentificatioN takes as input an RNA sequence alignment and secondary structure annotation and will identify a wide variety of known RNA motifs (such as tRNAs, 5S rRNAs, SRP RNA, C/D box snoRNAs, hammerhead motifs, miRNAs and others) in your sequence(s) of interest. Also contains tool for drawing secondary structure of motifs.","homepage":"http://rna.igmors.u-psud.fr/Software/erpin.php","biotoolsID":"erpin","biotoolsCURIE":"biotools:erpin","tool_type":["Command-line tool"],"collection":[],"scientific_topics":["http://edamontology.org/topic_0097","http://edamontology.org/topic_0099","http://edamontology.org/topic_3307"],"primary_publication":[],"operating_system":["Linux"],"tool_credit":[{"type_role":["Primary contact"],"name":"Daniel Gautheret","email":"daniel.gautheret@u-psud.fr","url":"http://rna.igmors.u-psud.fr/gautheret/","orcidid":null,"gridid":null,"typeEntity":"Person","note":null}],"tool_licence":null,"documentation":"http://rna.igmors.u-psud.fr/Software/erpin.php","maturity":null,"cost":null,"unique_visits":350,"citations":null,"annual_visits":415,"last_update":"2024-11-25T15:02:47.019198Z","teams":["EBIO"],"source_repository":null}]}