bamtools
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).
Info
Module Name
bamtools
Last Updated On
11/14/2023
Support Level
Primary Support
Software Access Level
Open Access
Home Page
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