bowtie2

Software Summary

Mesabi

Default Module:

2.2.4_gcc-4.9.2_haswell

Other Modules Available:

2.2.4_gcc-4.9.2_haswell, 2.3.4.1.CentOS7, 1.1.2, 2.1.0, 2.2.2, 2.2.4, 2.3.0, 2.3.1, 2.3.2, 2.3.4.1, 2.4.4

Last Updated On:

Monday, October 23, 2023

Mesabi K40

Default Module:

Other Modules Available:

Last Updated On:

Mangi

Default Module:

2.3.4.1.CentOS7

Other Modules Available:

2.3.4.1.CentOS7, 1.1.2, 2.1.0, 2.2.2, 2.2.4, 2.3.0, 2.3.1, 2.3.2, 2.3.4.1, 2.4.4

Last Updated On:

Monday, October 23, 2023

Mangi v100

Default Module:

Other Modules Available:

Last Updated On:

NICE

Default Module:

Other Versions Available:

Last Updated On:

Monday, October 23, 2023

Support Level:

Primary Support

Software Access Level:

Open Access

Home Page:

Link

Software Categories:

Genetics

Software Documentation

Software Documentation Tabs

General Linux

To load this software in a Linux environment run the commands:

module load bowtie2

Slurm Example

#!/bin/bash
#SBATCH --job-name="rfm_RunBowtie2Test_job"
#SBATCH --ntasks=1
#SBATCH --ntasks-per-node=1
#SBATCH --output=rfm_RunBowtie2Test_job.out
#SBATCH --error=rfm_RunBowtie2Test_job.err
#SBATCH --time=0:10:0
#SBATCH -p small,large,ram256g,ram1t
module load bowtie2/2.3.4.1
wget https://public.s3.msi.umn.edu/reframe/sw/bwa/sample.fq
wget https://public.s3.msi.umn.edu/reframe/sw/bwa/ref.fasta
bowtie2-build ref.fasta ref
bowtie2 -x ref sample.fq -S sample.sam