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Genome Biol. 2016 Apr 12;17:66. doi: 10.1186/s13059-016-0924-1.

JBrowse: a dynamic web platform for genome visualization and analysis.

Author information

1
Department of Bioengineering, University of California, Berkeley, California, USA.
2
Division of Animal Sciences, University of Missouri, Columbia, Missouri, USA.
3
Lawrence Berkeley National Laboratory, Berkeley, California, USA.
4
US Department of Energy, Joint Genome Institute, Walnut Creek, CA, 94598, USA.
5
Current affiliation: Genomancer Consulting, Healdsburg, California, USA.
6
Ontario Institute of Cancer Research, Toronto, Ontario, Canada.
7
Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada.
8
Department of Bioengineering, University of California, Berkeley, California, USA. ihholmes@gmail.com.
9
Lawrence Berkeley National Laboratory, Berkeley, California, USA. ihholmes@gmail.com.

Abstract

BACKGROUND:

JBrowse is a fast and full-featured genome browser built with JavaScript and HTML5. It is easily embedded into websites or apps but can also be served as a standalone web page.

RESULTS:

Overall improvements to speed and scalability are accompanied by specific enhancements that support complex interactive queries on large track sets. Analysis functions can readily be added using the plugin framework; most visual aspects of tracks can also be customized, along with clicks, mouseovers, menus, and popup boxes. JBrowse can also be used to browse local annotation files offline and to generate high-resolution figures for publication.

CONCLUSIONS:

JBrowse is a mature web application suitable for genome visualization and analysis.

KEYWORDS:

Bioinformatics; Browser; Genome

PMID:
27072794
PMCID:
PMC4830012
DOI:
10.1186/s13059-016-0924-1
[Indexed for MEDLINE]
Free PMC Article

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