ensembl-vep
Link to section 'Introduction' of 'ensembl-vep' Introduction
Ensembl-vep(Ensembl Variant Effect Predictor) predicts the functional effects of genomic variants.
Docker hub: https://hub.docker.com/r/ensemblorg/ensembl-vep
Home page: https://github.com/Ensembl/ensembl-vep
Link to section 'Versions' of 'ensembl-vep' Versions
- 106.1
- 107.0
- 108.2
Link to section 'Commands' of 'ensembl-vep' Commands
- vep
- haplo
- variant_recoder
Link to section 'Module' of 'ensembl-vep' Module
You can load the modules by:
module load biocontainers
module load ensembl-vep
Link to section 'Example job' of 'ensembl-vep' 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 ensembl-vep on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=ensembl-vep
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers ensembl-vep
haplo -i bos_taurus_UMD3.1.vcf -o out.txt