tophat: Spliced read mapper for RNA-Seq

Overview of package

Package:	tophat
Description:	Spliced read mapper for RNA-Seq
For more information:	https://ccb.jhu.edu/software/tophat
Categories:	Genomics
License:	Unknown

General Usage

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.

NOTE: This software package is DEPRECATED Please migrate to the 'hisat2' tool, also from JHU CCB, which provides the same core functionality in a more accurate and efficient manner.

This module will add the tophat, tophat2 and related commands to your PATH

Available versions by cluster

This section lists the available versions of the package tophaton the UMD HPC clusters.

Versions available on the Zaratan cluster

Version	Module tags	CPU(s) optimized for	GPU ready?
2.1.1	2.1.1	x86_64	Yes