kmergenie.rst

Kmergenie

Introduction ~~~~~~~~ KmerGenie estimates the best k-mer length for genome de novo assembly.

For more information, please check:
BioContainers: https://biocontainers.pro/tools/kmergenie
Home page: http://kmergenie.bx.psu.edu

Versions

• 1.7051

Commands ~~~~~~~ - kmergenie

Module

You can load the modules by:

module load biocontainers
module load kmergenie

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 kmergenie on our clusters:

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

module --force purge
ml biocontainers kmergenie