abismal
Link to section 'Introduction' of 'abismal' Introduction
Another Bisulfite Mapping Algorithm (abismal) is a read mapping program for bisulfite sequencing in DNA methylation studies.
BioContainers: https://biocontainers.pro/tools/abismal
Home page: https://github.com/smithlabcode/abismal
Link to section 'Versions' of 'abismal' Versions
- 3.0.0
Link to section 'Commands' of 'abismal' Commands
- abismal
- abismalidx
- simreads
Link to section 'Module' of 'abismal' Module
You can load the modules by:
module load biocontainers
module load abismal
Link to section 'Example job' of 'abismal' Example job
Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.
To run abismal on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=abismal
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers abismal
abismalidx ~/.local/share/genomes/hg38/hg38.fa hg38