JBrowse: a dynamic web platform for genome visualization and analysis

被引：594

作者：

Buels, Robert ^{[1
]}

Yao, Eric ^{[1
]}

Diesh, Colin M. ^{[2
]}

Hayes, Richard D. ^{[3
,6
]}

Munoz-Torres, Monica ^{[3
]}

Helt, Gregg ^{[3
,4
]}

Goodstein, David M. ^{[3
,6
]}

Elsik, Christine G. ^{[2
]}

Lewis, Suzanna E. ^{[3
]}

Stein, Lincoln ^{[5
,7
]}

Holmes, Ian H. ^{[1
,3
]}

机构：

[1] Univ Calif Berkeley, Dept Bioengn, Berkeley, CA 94720 USA

[2] Univ Missouri, Div Anim Sci, Columbia, MO USA

[3] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Berkeley, CA 94720 USA

[4] Genomancer Consulting, Healdsburg, CA USA

[5] Ontario Inst Canc Res, Toronto, ON, Canada

[6] US DOE, Joint Genome Inst, Walnut Creek, CA 94598 USA

[7] Univ Toronto, Dept Mol Genet, Toronto, ON, Canada

来源：

GENOME BIOLOGY | 2016年 / 17卷

关键词：

Genome; Browser; Bioinformatics; DATABASE; BROWSER;

D O I：

10.1186/s13059-016-0924-1

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 [微生物学]; 090105 [作物生产系统与生态工程];

摘要：

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.

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