====== Tophat (1.4.1 from binary) ======

A spliced read mapper for RNA-Seq.
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  * Download

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<code>
wget http://tophat.cbcb.umd.edu/downloads/tophat-1.4.1.Linux_x86_64.tar.gz
tar xvzf tophat-1.4.1.Linux_x86_64.tar.gz
</code>
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  * Install
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<code>
mv tophat-1.4.1.Linux_x86_64 /usr/local/bin/
ln -s /usr/local/bin/tophat-1.4.1.Linux_x86_64/tophat /usr/local/bin/
</code>
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  * Test
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<code>
wget http://tophat.cbcb.umd.edu/downloads/test_data.tar.gz
tar zxvf test_data.tar.gz
cd test_data/
tophat -r 20 test_ref reads_1.fq reads_2.fq
</code>
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