bamtools

Genetics

Software Description

1

Info

Module Name

bamtools

Last Updated On

11/14/2023

Support Level

Primary Support

Software Access Level

Open Access

Home Page

https://github.com/pezmaster31/bamtools

Documentation

Software Description

BamTools provides both a programmer\'s API and an end-user\'s toolkit for handling BAM files (SAMtools is a superior SAM/BAM toolkit).

Slurm Example

#!/bin/bash
#SBATCH --job-name="rfm_RunBamtoolsTest_job"
#SBATCH --ntasks=1
#SBATCH --ntasks-per-node=1
#SBATCH --output=rfm_RunBamtoolsTest_job.out
#SBATCH --error=rfm_RunBamtoolsTest_job.err
#SBATCH --time=0:10:0
#SBATCH -p small,large,ram256g,ram1t
module load bamtools/20120608
bamtools stats -in out.bam

General Linux

To load this module for use in a Linux environment, you can run the command:

module load bamtools

Depending on where you are working, there may be more than one version of bamtools available. To see which modules are available for loading you can run:

module avail bamtools

Agate Modules

Default

2.5.2-gcc-8.2.0-vzfrpdp

Other Modules

2.5.2-gcc-13.1.0-6ce7c3p, 2.5.2-gcc-8.2.0-vzfrpdp, 2.5.1, 20120608

Mangi Modules

Default

2.5.2-gcc-8.2.0-vzfrpdp

Other Modules

2.5.2-gcc-13.1.0-6ce7c3p, 2.5.2-gcc-8.2.0-vzfrpdp, 2.5.1, 20120608

Mesabi Modules

Default

2.5.2-gcc-8.2.0-vzfrpdp

Other Modules

2.5.2-gcc-13.1.0-6ce7c3p, 2.5.2-gcc-8.2.0-vzfrpdp, 2.5.1, 20120608