modbam2bed
Link to section 'Introduction' of 'modbam2bed' Introduction
Modbam2bed is a program to aggregate modified base counts stored in a modified-base BAM file to a bedMethyl file.
Docker hub: https://hub.docker.com/r/zeunas/modbam2bed
Home page: https://github.com/epi2me-labs/modbam2bed
Link to section 'Versions' of 'modbam2bed' Versions
- 0.9.1
Link to section 'Commands' of 'modbam2bed' Commands
- modbam2bed
Link to section 'Module' of 'modbam2bed' Module
You can load the modules by:
module load biocontainers
module load modbam2bed
Link to section 'Example job' of 'modbam2bed' 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 modbam2bed on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=modbam2bed
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers modbam2bed