mykrobe
Link to section 'Introduction' of 'mykrobe' Introduction
Mykrobe analyses the whole genome of a bacterial sample, all within a couple of minutes, and predicts which drugs the infection is resistant to.
Docker hub: https://hub.docker.com/r/staphb/mykrobe
Home page: https://github.com/Mykrobe-tools/mykrobe
Link to section 'Versions' of 'mykrobe' Versions
- 0.11.0
Link to section 'Commands' of 'mykrobe' Commands
- mykrobe
Link to section 'Module' of 'mykrobe' Module
You can load the modules by:
module load biocontainers
module load mykrobe
Link to section 'Example job' of 'mykrobe' 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 mykrobe on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=mykrobe
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers mykrobe