qualimap
Link to section 'Introduction' of 'qualimap' Introduction
Qualimap is a platform-independent application written in Java and R that provides both a Graphical User Interface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.
For more information, please check its website: https://biocontainers.pro/tools/qualimap and its home page: http://qualimap.conesalab.org.
Link to section 'Versions' of 'qualimap' Versions
- 2.2.1
Link to section 'Commands' of 'qualimap' Commands
- qualimap
Link to section 'Module' of 'qualimap' Module
You can load the modules by:
module load biocontainers
module load qualimap
Link to section 'Example job' of 'qualimap' 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 Qualimap on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=qualimap
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers qualimap