Macs2

Introduction

MACS2 is Model-based Analysis of ChIP-Seq for identifying transcript factor binding sites.

For more information, please check:

BioContainers: https://biocontainers.pro/tools/macs2

Home page: https://github.com/macs3-project/MACS

Versions

• 2.2.7.1

Commands

• macs2

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 macs2 on our clusters:

#!/bin/bash
#SBATCH -p PartitionName  # batch, gpu, preempt, mpi or your group's own partition
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH -c 4
#SBATCH --mem=8G
#SBATCH --job-name=macs2
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module purge
module load macs2/XXXX ### you can run *module avail macs2* to check all available versions

macs2 callpeak -t ChIP.bam -c Control.bam -f BAM -g hs -n test -B -q 0.01