Tophat
Revision as of 20:02, 10 August 2012 by Moskalenko (talk | contribs)
Description
TopHat is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq reads to mammalian-sized genomes using the ultra high-throughput short read aligner Bowtie, and then analyzes the mapping results to identify splice junctions between exons.
Tophat is a part of the Tuxedo suite.
Required Modules
Serial
- tophat
System Variables
- HPC_{{#uppercase:tophat}}_DIR - installation directory
- HPC_TOPHAT_BIN - executable directory
- HPC_TOPHAT_DOC - documents directory