Vcf-kit

Introduction

VCF-kit is a command-line based collection of utilities for performing analysis on Variant Call Format (VCF) files.

For more information, please check:
BioContainers: https://biocontainers.pro/tools/vcf-kit
Home page: https://github.com/AndersenLab/VCF-kit

Versions

0.2.6
0.2.9

Commands

vk

Module

You can load the modules by:

module load biocontainers
module load vcf-kit

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 vcf-kit on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=vcf-kit
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers vcf-kit