G-OnRamp: a Galaxy-based platform for collaborative annotation of eukaryotic genomes

SUMMARY: G-OnRamp provides a user-friendly, web-based platform for collaborative, end-to-end annotation of eukaryotic genomes using UCSC Assembly Hubs and JBrowse/Apollo genome browsers with evidence tracks derived from sequence alignments, ab initio gene predictors, RNA-Seq data and repeat finders....

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Detalles Bibliográficos
Autores principales: Liu, Yating, Sargent, Luke, Leung, Wilson, Elgin, Sarah C R, Goecks, Jeremy
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6821377/
https://www.ncbi.nlm.nih.gov/pubmed/31070714
http://dx.doi.org/10.1093/bioinformatics/btz309
Descripción
Sumario:SUMMARY: G-OnRamp provides a user-friendly, web-based platform for collaborative, end-to-end annotation of eukaryotic genomes using UCSC Assembly Hubs and JBrowse/Apollo genome browsers with evidence tracks derived from sequence alignments, ab initio gene predictors, RNA-Seq data and repeat finders. G-OnRamp can be used to visualize large genomics datasets and to perform collaborative genome annotation projects in both research and educational settings. AVAILABILITY AND IMPLEMENTATION: The virtual machine images and tutorials are available on the G-OnRamp web site (http://g-onramp.org/deployments). The source code is available under an Academic Free License version 3.0 through the goeckslab GitHub repository (https://github.com/goeckslab). SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

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