GMAP: A Genomic Mapping and Alignment Program for mRNA and EST Sequences, and GSNAP: Genomic Short-read Nucleotide Alignment Program

Links are provided below in parentheses for users who wish to download the files with a command-line tool, like wget.

As of December 2011, there is a new mailing list at gsnap-users for issues relating to both GMAP and GSNAP. You can sign up there to receive release notices, ask questions, or see previous messages. If you have a bug to report or a feature to request, you can send email to gsnap-users@ebi.ac.uk (you will have to subscribe to the list first, though, or the message will be held for me to approve) or directly to me at Thomas Wu (twu@gene.com).

Pre-built genome database for GMAP and GSNAP. This will work only with versions 2013-10-01 until 2014-03-28, and lacks the suffix array that helps GSNAP achieve high speeds. An example database for the current versions 2014-04-01 and later is pending. In the meantime, you should build your own genome database with the gmap_build program included with this software.

README file from the source code distribution. Contains basic usage information.

Software demonstration given at ISMB 2005. Contains various examples of GMAP usage. [Slides]

References:

Supplementary information for Bioinformatics 2005 publication on GMAP:

Visit link:
GMAP - Genentech

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