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

Yating Liu, Luke Sargent, Wilson Leung, Sarah C.R. Elgin, Jeremy Goecks

Research output: Contribution to journalArticle

Abstract

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, RNASeq 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).

Original languageEnglish (US)
Pages (from-to)4422-4423
Number of pages2
JournalBioinformatics
Volume35
Issue number21
DOIs
StatePublished - Nov 1 2019

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Galaxies
Annotation
Genome
Genes
Sequence Alignment
Virtual Machine
Licensure
Genomics
Web-based
Repository
Predictors
Availability
Gene
Websites
Research

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

G-OnRamp : A Galaxy-based platform for collaborative annotation of eukaryotic genomes. / Liu, Yating; Sargent, Luke; Leung, Wilson; Elgin, Sarah C.R.; Goecks, Jeremy.

In: Bioinformatics, Vol. 35, No. 21, 01.11.2019, p. 4422-4423.

Research output: Contribution to journalArticle

Liu, Yating ; Sargent, Luke ; Leung, Wilson ; Elgin, Sarah C.R. ; Goecks, Jeremy. / G-OnRamp : A Galaxy-based platform for collaborative annotation of eukaryotic genomes. In: Bioinformatics. 2019 ; Vol. 35, No. 21. pp. 4422-4423.
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