Jalview development and support is funded by a grant from the UK BBSRC. We are currently seeking renewal of this grant and letters of support are critical to the success of this renewal. If you find Jalview useful, please take a few minutes to write as soon as possible and tell us how you use Jalview and how important it is to your work!

Letters of support, ideally as a PDF on headed paper or as plain text should be sent to: support_jalview@bartongroup.org

Jalview Help
 
 Pressing F1 in the Jalview Desktop will open the built-in help system, which can also be searched. F1 in JalviewLite will open this page in your browser.
How do I edit sequences in Jalview? A quick guide to mouse and keystroke alignment editing in Jalview 2.
The Jalview 2.7 Manual
5MB for on screen
40MB Print Version

This is a comprehensive user manual with exercises, written by David Martin, Jim Procter, Geoff Barton and Andrew Waterhouse.

 

Old documentation preserved for posterity

Jalview Quickstart Guide
A quick reference for Jalview 2.0 that was produced for its first release in 2005.

Jalview 1.18 Documentation
The original help documentation for Jalview version 1 (published in Clamp et. al 2004). [ just being fixed ;) ]