Panache: a web browser-based viewer for linearized pangenomes

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cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationFrench Institute of Bioinformaticsen
cg.contributor.affiliationBioversity Internationalen
cg.contributor.affiliationSyngenta Seeds SASen
cg.contributor.crpGenebanks
cg.contributor.crpRice
cg.contributor.crpRoots, Tubers and Bananas
cg.contributor.donorSyngentaen
cg.creator.identifierMathieu Rouard: 0000-0003-0284-1885
cg.identifier.doihttps://doi.org/10.1093/bioinformatics/btab688en
cg.identifier.urlhttps://github.com/SouthGreenPlatform/panacheen
cg.isijournalISI Journalen
cg.issn1367-4803en
cg.issue23en
cg.journalBioinformaticsen
cg.reviewStatusPeer Reviewen
cg.subject.actionAreaGenetic Innovation
cg.subject.alliancebiovciatGENETIC RESOURCESen
cg.subject.alliancebiovciatINFORMATION SYSTEMSen
cg.subject.alliancebiovciatKNOWLEDGE MANAGEMENTen
cg.subject.alliancebiovciatPLANT BREEDINGen
cg.subject.impactAreaClimate adaptation and mitigation
cg.subject.impactAreaEnvironmental health and biodiversity
cg.subject.impactAreaNutrition, health and food security
cg.subject.sdgSDG 12 - Responsible consumption and productionen
cg.volumebtab688en
dc.contributor.authorDurant, Éloien
dc.contributor.authorSabot, Françoisen
dc.contributor.authorConte, Matthieuen
dc.contributor.authorRouard, Mathieuen
dc.date.accessioned2021-10-06T09:13:33Zen
dc.date.available2021-10-06T09:13:33Zen
dc.identifier.urihttps://hdl.handle.net/10568/115324
dc.titlePanache: a web browser-based viewer for linearized pangenomesen
dcterms.abstractPangenomics evolved since its first applications on bacteria, extending from the study of genes for a given population to the study of all of its sequences available. While multiple methods are being developed to construct pangenomes in eukaryotic species there is still a gap for efficient and user-friendly visualization tools. Emerging graph representations come with their own challenges, and linearity remains a suitable option for user-friendliness.We introduce Panache, a tool for the visualization and exploration of linear representations of gene-based and sequence-based pangenomes. It uses a layout similar to genome browsers to display presence absence variations and additional tracks along a linear axis with a pangenomics perspective.Panache is available at github.com/SouthGreenPlatform/panache under the MIT License.en
dcterms.accessRightsOpen Access
dcterms.audienceScientistsen
dcterms.available2021-10-02
dcterms.bibliographicCitationDurant, É.; Sabot, F.; Conte, M.; Rouard, M. (2021) Panache: a web browser-based viewer for linearized pangenomes. Bioinformatics btab688 ISSN: 1367-4803en
dcterms.extentpp. 4556-4558en
dcterms.issued2021-12-07
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.publisherOxford University Pressen
dcterms.subjectmonitoring systemsen
dcterms.subjectdigital technologyen
dcterms.subjectinnovation adoptionen
dcterms.subjectgenomesen
dcterms.subjectnucleotide sequenceen
dcterms.subjecttecnología digitalen
dcterms.subjectadopción de innovacionesen
dcterms.subjectgenomasen
dcterms.typeJournal Article

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