Software: Htslib
Description
Htslib is a C library for high-throughput sequencing data formats.
Available Versions
| Unspecified: | 1.14 1.15 1.16 1.17 |
|---|
For more information, please check its website: https://biocontainers.pro/tools/htslib and its home page on Github.
Commands
- bgzip
- htsfile
- tabix
Module
You can load the modules by:
module load biocontainers
module load htslib
Example job
Using
#!/bin/sh -las shebang in the slurm job script will cause the failure of some biocontainer modules. Please use#!/bin/bashinstead.
To run Htslib on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=htslib
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers htslib
tabix sorted.gff.gz chr1:10,000,000-20,000,000