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Name

APPS/BIO/BOWTIE-2.02.53

Description

Bowtie Bowtie2 short read mapper

Status

Production

Last update

2013-0109-0822

Usage example

Here is a simple test case for the runtime environment.

...

Code Block
&
(executable=run_bowtie2.sh)
(jobname=bowtie2)
(stdout=std.out)
(stderr=std.err)
(gmlog=gridlog)
(cputime=60)
(memory=4000)
(runtimeenvironment=APPS/BIO/BOWTIE-2.02.53)
(inputfiles= 
  ("chr_18.fa" "chr_18.fa")
  ("reads100k.fq" "reads100k.fq")
)
(outputfiles=
  ("output.sam" "output.sam")
)

...

Code Block
wget http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.02.53/bowtie2-2.02.53-linux-x86_64.zip
unzip bowtie2-2.0.5-linux-x86_64.zip

...