Viewing multiple sequence alignments with the JavaScript Sequence Alignment Viewer (JSAV)

Abstract

The JavaScript Sequence Alignment Viewer (JSAV) is designed as a simple-to-useJavaScript component for displaying sequence alignments on web pages. Thedisplay of sequences is highly configurable with options to allow alternative coloringschemes, sorting of sequences and 'dotifying' repeated amino acids. Anoption is also available to submit selected sequences to another web site, or toother JavaScript code. JSAV is implemented purely in JavaScript making use of the JQuery and JQuery-UI libraries. It does not use any HTML5-specific options to helpwith browser compatibility. The code is documented using JSDOC and is availablefrom http://www.bioinf.org.uk/software/jsav/.