Jalview Version 2—a multiple sequence alignment editor and analysis workbench

Andrew Waterhouse(Broad Institute), James B Procter(Broad Institute), David Martin(Broad Institute), Michèle Clamp(Broad Institute), Geoffrey J. Barton(Broad Institute)
Bioinformatics
January 16, 2009
10.1093/bioinformatics/btp033
Cited by 10,838Open Access
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Abstract

UNLABELLED: Jalview Version 2 is a system for interactive WYSIWYG editing, analysis and annotation of multiple sequence alignments. Core features include keyboard and mouse-based editing, multiple views and alignment overviews, and linked structure display with Jmol. Jalview 2 is available in two forms: a lightweight Java applet for use in web applications, and a powerful desktop application that employs web services for sequence alignment, secondary structure prediction and the retrieval of alignments, sequences, annotation and structures from public databases and any DAS 1.53 compliant sequence or annotation server. AVAILABILITY: The Jalview 2 Desktop application and JalviewLite applet are made freely available under the GPL, and can be downloaded from www.jalview.org.

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