Index of /examples/bioinformatics/bowtie2

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[DIR] Parent Directory - [   ] bowtie2_job.qsub 06-Mar-2015 16:52 312

Bowtie2 package example

To run bowtie at the command line:

scc4% module load bowtie2/2.2.4

scc4% bowtie2-build $SCC_BOWTIE2_EXAMPLES/reference/lambda_virus.fa lambda_virus

scc4% bowtie2 -x lambda_virus -U $SCC_BOWTIE2_EXAMPLES/reads/reads_1.fq -S eg1.sam


To submit a job, execute command:
scc4% qsub -P my_project bowtie2_job.qsub

Manual for Bowtie2: http://bowtie-bio.sourceforge.net/bowtie2/manual.shtml