TopHat

TopHat uses Bowtie, a high-throughput short read aligner, to analyze the mapping results for RNA-Seq reads and identify splice junctions.

Availability and Restrictions

Versions

TopHat is available on the Owens Cluster. The versions currently available at OSC are:

VERSION OWENS
2.1.1 X*
* Current Default Version

You can use module spider tophat to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.

Access

TopHat is available without restriction to all OSC users.

Usage

Usage on Owens

Set-up

To configure your enviorment for use of TopHat, use command module load tophat. This will load the default version.

Further Reading

Fields of Science: