Afplot
Introduction
Afplot
is a tool to plot allele frequencies in VCF files.
For more information, please check its website: https://biocontainers.pro/tools/afplot and its home page on Github.
Versions
0.2.1
Commands
afplot
Module
You can load the modules by:
module load biocontainers
module load afplot
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 afplot on our our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=afplot
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers afplot
afplot whole-genome histogram -v my_vcf.gz -l my_label -s my_sample -o mysample.histogram.png