Mercurial > repos > biomonika > linkyx

annotate LINKYX_reformat_trinity_header.sh @ 9:695d28139f3e

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toolshed8
author biomonika <biomonika@psu.edu>
date Tue, 09 Sep 2014 14:31:02 -0400
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Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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biomonika <biomonika@psu.edu>
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1 #!/bin/bash
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biomonika <biomonika@psu.edu>
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2
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biomonika <biomonika@psu.edu>
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3 results=$1 #reformatted fasta sequence written here
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biomonika <biomonika@psu.edu>
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4 trinity_fasta=${2}
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biomonika <biomonika@psu.edu>
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5
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biomonika <biomonika@psu.edu>
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6 perl -pe 's/(>[\S]+).+/$1/' $trinity_fasta >$results
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biomonika <biomonika@psu.edu>
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7 samtools faidx $results
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biomonika <biomonika@psu.edu>
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8
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biomonika <biomonika@psu.edu>
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