Platypus

Introduction

Platypus is a tool designed for efficient and accurate variant-detection in high-throughput sequencing data.

For more information, please check its website: https://biocontainers.pro/tools/platypus and its home page: https://www.well.ox.ac.uk/research/research-groups/lunter-group/lunter-group/platypus-a-haplotype-based-variant-caller-for-next-generation-sequence-data.

Versions

0.8.1

Commands

platypus

Module

You can load the modules by:

module load biocontainers
module load platypus

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 Platypus on our clusters:

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

module --force purge
ml biocontainers platypus