antismash
Link to section 'Introduction' of 'antismash' Introduction
Antismash Antismash allows the rapid genome-wide identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genomes.
For more information, please check its website: https://biocontainers.pro/tools/antismash and its home page: https://docs.antismash.secondarymetabolites.org.
Link to section 'Versions' of 'antismash' Versions
- 5.1.2
- 6.0.1
Link to section 'Commands' of 'antismash' Commands
- antismash
Link to section 'Module' of 'antismash' Module
You can load the modules by:
module load biocontainers
module load antismash
Link to section 'Example job' of 'antismash' 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 Antismash on our our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 4
#SBATCH --job-name=antismash
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers antismash
antismash --cb-general --cb-knownclusters --cb-subclusters --asf --pfam2go --smcog-trees seq.gbk