Seqyclean

Introduction

Seqyclean is used to pre-process NGS data in order to prepare for downstream analysis. For more information, please check: Docker hub: https://hub.docker.com/r/staphb/seqyclean Home page: https://github.com/ibest/seqyclean

Versions

1.10.09

Commands

seqyclean

Module

You can load the modules by:

module load biocontainers
module load seqyclean

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 seqyclean on our clusters:

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

module --force purge
ml biocontainers seqyclean