Software: KMA
Description
KMA is a mapping method designed to map raw reads directly against redundant databases, in an ultra-fast manner using seed and extend.
Available Versions
| Unspecified: | 1.4.3 |
|---|
BioContainers: https://biocontainers.pro/tools/kma
Home page: https://bitbucket.org/genomicepidemiology/kma/src/master/
Commands
- kma
- kma_index
- kma_shm
- kma_update
Module
You can load the modules by:
module load biocontainers
module load kma
Example job
Using
#!/bin/sh -las shebang in the slurm job script will cause the failure of some biocontainer modules. Please use#!/bin/bashinstead.
To run kma on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=kma
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers kma