gimmemotifs
Link to section 'Introduction' of 'gimmemotifs' Introduction
GimmeMotifs is a suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments.
BioContainers: https://biocontainers.pro/tools/gimmemotifs
Home page: https://github.com/vanheeringen-lab/gimmemotifs
Link to section 'Versions' of 'gimmemotifs' Versions
- 0.17.1
Link to section 'Commands' of 'gimmemotifs' Commands
- gimme -
Link to section 'Module' of 'gimmemotifs' Module
You can load the modules by:
module load biocontainers
module load gimmemotifs
Link to section 'Example job' of 'gimmemotifs' Example job
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 gimmemotifs on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=gimmemotifs
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers gimmemotifs
gimme motifs ENCFF407IVS.bed ENCFF407IVS_motifs \
-g ~/.local/share/genomes/hg38/hg38.fa --denovo