genmap
Link to section 'Introduction' of 'genmap' Introduction
GenMap: Ultra-fast Computation of Genome Mappability.
BioContainers: https://biocontainers.pro/tools/genmap
Home page: https://github.com/cpockrandt/genmap
Link to section 'Versions' of 'genmap' Versions
- 1.3.0
Link to section 'Commands' of 'genmap' Commands
- genmap
Link to section 'Module' of 'genmap' Module
You can load the modules by:
module load biocontainers
module load genmap
Link to section 'Example job' of 'genmap' 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 genmap on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=genmap
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers genmap
export TMPDIR=$PWD/tmp
genmap index -F ~/.local/share/genomes/hg38/hg38.fa -I hg38_index
genmap map -K 64 -E 2 -I hg38_index -O map_output_hg38 -t -w -bg