TopHat

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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.

Availability

Version 2.0.4, 2.0.8 and 2.0.12. Available modules:

tophat-2.0.4
tophat-2.0.8
tophat-2.0.12
tophat-2.1.1

Use

module add tophat-2.1.1
tophat -h
cuffdiff

and other binaries, see Documentation.

Documentation

https://ccb.jhu.edu/software/tophat/manual.shtml

Licence

Boost Software License, Version 1.0

Program manager

meta@cesnet.cz

Homepage

https://ccb.jhu.edu/software/tophat/index.shtml