GenomeMapper

Single reference alignments.

GenomeMapper is a short read mapping tool designed for accurate read alignments. It quickly aligns millions of reads either with ungapped or gapped alignments. This version is used to align against a single reference. If you are unsure which one is the appropriate GenomeMapper, you might want to use this one.

GenomeMapper stable releases

For SHORE and WMD3 please use this version.

Release	Date	Download
Release 0.4.4	2012-10-30	source code including documentation
Release 0.4.2stable	2010-06-25	source code including documentation Bug fixed and a few new options
Release 0.4.1stable	2009-12-14	source code including documentation
Release 0.3.2stable	2009-08-11	source code including documentation Updated README
Release 0.3.0stable	2009-08-07	source code including documentation

GenomeMapper - beta releases

For versions with more options please use these beta versions.

Release	Date	Download
Release 0.4.0beta	2009-07-28	source code including documentation This version implements threading for a parallelized version of GenomeMapper.
Release 0.3.1beta	2009-06-04	source code including documentation This version implements sophisticated memory sharing for the index handling. Therefore it is not complatible with the old GenomeMapper versions. Simply re-new your indices.
Release 0.2.2beta	2009-02-03	source code including documentation
Release 0.2.1beta	2008-12-16	source code including documentation
Release 0.2.0beta	2008-11-28	source code including documentation
Release 0.1.1beta	2008-11-19	source code including documentation
Release 0.1beta	2008-11-19	source code including documentation

Related publication

Simultaneous alignment of short reads against multiple genomes

Schneeberger K., Hagmann J., Ossowski S., Warthmann N., Gesing S., Kohlbacher O. and Weigel D.

Genome Biology (2009), 6, 550 - 551.

Contact

If you have any questions, don't hesitate to contact us: Korbinian Schneeberger.