pygenometracks
Link to section 'Introduction' of 'pygenometracks' Introduction
pyGenomeTracks aims to produce high-quality genome browser tracks that are highly customizable.
BioContainers: https://biocontainers.pro/tools/pygenometracks
Home page: https://github.com/deeptools/pyGenomeTracks
Link to section 'Versions' of 'pygenometracks' Versions
- 3.7
Link to section 'Commands' of 'pygenometracks' Commands
- make_tracks_file
- pyGenomeTracks
Link to section 'Module' of 'pygenometracks' Module
You can load the modules by:
module load biocontainers
module load pygenometracks
Link to section 'Example job' of 'pygenometracks' 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 pygenometracks on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=pygenometracks
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers pygenometracks
make_tracks_file --trackFiles domains.bed bigwig.bw -o tracks.ini
pyGenomeTracks --tracks tracks.ini \
--region chr2:10,000,000-11,000,000 --outFileName nice_image.pdf