Genomedata¶
Introduction¶
Genomedata is a format for efficient storage of multiple tracks of numeric data anchored to a genome. The format allows fast random access to hundreds of gigabytes of data, while retaining a small disk space footprint.
For more information, please check:
BioContainers: https://biocontainers.pro/tools/genomedata
Versions¶
1.5.0
Commands¶
python
python3
genomeCoverageBed
genomedata-close-data
genomedata-erase-data
genomedata-hardmask
genomedata-histogram
genomedata-info
genomedata-load
genomedata-load-assembly
genomedata-load-data
genomedata-load-seq
genomedata-open-data
genomedata-query
genomedata-report
Module¶
You can load the modules by:
module load biocontainers
module load genomedata
Example job¶
Warning
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 genomedata on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=genomedata
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers genomedata