Thank you to everyone who wrote letters of support last year for our application to the BBSRC, we should hear the outcome in the next couple of months.

We are now applying to the Wellcome Trust to renew funding to support Jalview's use in biomedical sequence analysis, including interpretation of genomic variation and long read RNA data (e.g. Nanopore) at the protein coding level. If you would like Jalview to continue to develop and be supported then please take a few minutes to write us a support letter saying how you use Jalview in your research/teaching.

Write as a PDF including your institution's heading and send to:
support_jalview@bartongroup.org by Friday 22nd March 2019.

Thank you!

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 the help pages in your browser
How do I edit sequences in Jalview? A quick guide to mouse and keystroke alignment editing in Jalview 2
The Jalview Manual
Low-resolution for on screen
High-resolution 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)