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#\!/bin/bash export BOWTIE_INDEXES="/home/taejoon/BOWTIE.idx/" BOWTIE="/home/taejoon/src64/bowtie/bowtie-0.12.5/bowtie" DB="DROME_E57_cdna_c" QUERY="SRR034220.called.fastq" OUT="SRR034220_called.$DB.bowtie_c" time $BOWTIE \-a \-C \-q \-t \--suppress 6 $DB $QUERY $OUT OUT="SRR034220_called.$DB.trim5_bowtie_c" time $BOWTIE \-a \-C \-q \-t \--trim5 5 \--trim3 5 \--suppress 6 $DB $QUERY $OUT |
Available on
User documentation
- To get started using bowtie, check out the bowtie manual.
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