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tophat: Spliced read mapper for RNA-Seq

Contents

  1. Overview of package
    1. General usage
  2. Availability of package by cluster

Overview of package

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

General usage information

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 of the package tophat, by cluster

This section lists the available versions of the package tophaton the different clusters.

Available versions of tophat on the Zaratab cluster

Available versions of tophat on the Zaratab cluster
Version Module tags CPU(s) optimized for GPU ready?
2.1.1 tophat/2.1.1 x86_64 Y






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