JBrowse: a Next-generation Genome Browser

Overview

Journal Genome Res

Specialty Genetics

Date 2009 Jul 3

PMID 19570905

Citations 436

Authors

Mitchell E Skinner

Andrew V Uzilov

Lincoln D Stein

Christopher J Mungall

Ian H Holmes

Affiliations

Soon will be listed here.

Abstract

We describe an open source, portable, JavaScript-based genome browser, JBrowse, that can be used to navigate genome annotations over the web. JBrowse helps preserve the user's sense of location by avoiding discontinuous transitions, instead offering smoothly animated panning, zooming, navigation, and track selection. Unlike most existing genome browsers, where the genome is rendered into images on the webserver and the role of the client is restricted to displaying those images, JBrowse distributes work between the server and client and therefore uses significantly less server overhead than previous genome browsers. We report benchmark results empirically comparing server- and client-side rendering strategies, review the architecture and design considerations of JBrowse, and describe a simple wiki plug-in that allows users to upload and share annotation tracks.

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