Pycoqc
is a tool that computes metrics and generates interactive QC plots for Oxford Nanopore technologies sequencing data.
For more information, please check its website: https://biocontainers.pro/tools/pycoqc and its home page on Github.
- 2.5.2
- pycoQC
- python
- python3
You can load the modules by:
module load biocontainers module load pycoqc
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 Pycoqc on our clusters:
#!/bin/bash #SBATCH -A myallocation # Allocation name #SBATCH -t 1:00:00 #SBATCH -N 1 #SBATCH -n 1 #SBATCH --job-name=pycoqc #SBATCH --mail-type=FAIL,BEGIN,END #SBATCH --error=%x-%J-%u.err #SBATCH --output=%x-%J-%u.out module --force purge ml biocontainers pycoqc pycoQC \ -f Albacore-1.2.1_basecall-1D-DNA_sequencing_summary.txt\ -o Albacore-1.2.1_basecall-1D-DNA.html \ --quiet