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SVN  €TIMESTAMP = 1522620646
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SVN  ‚X‚Z€‚X‚X#!/bin/sh -e

if [ ! -e test_data.tar.gz ]; then
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fi
if [ -e test_data ]; then
    cat << EOM

test_data already exists.  Remove it or run $0 from a different directory.

EOM
    exit 1
fi
tar zxvf test_data.tar.gz
cd test_data
tophat -r 20 test_ref reads_1.fq reads_2.fq
ENDREP
DELTA
SVN  ƒRƒT€ƒRƒRTopHat 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:

TopHat has been Superseded by HISAT2 and is no longer maintained upstream.
This port is provided mainly for revisiting old studies where TopHat was used.

WWW: http://ccb.jhu.edu/software/tophat/index.shtml
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