Mercurial > repos > biomonika > linkyx

annotate LINKYX_reformat_trinity_header.sh @ 27:91f05fd5f5f2

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toolshed perl, older 091 commit, two occure
author biomonika <biomonika@psu.edu>
date Fri, 12 Sep 2014 00:34:58 -0400
parents 695d28139f3e
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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biomonika <biomonika@psu.edu>
parents:
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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>
parents:
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biomonika <biomonika@psu.edu>
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