augustus
Link to section 'Introduction' of 'augustus' Introduction
AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences.
For more information, please check its website: https://bioinf.uni-greifswald.de/augustus/.
Link to section 'Versions' of 'augustus' Versions
- 3.4.0
- 3.5.0
Commands
- aln2wig
- augustus
- bam2wig
- bam2wig-dist
- consensusFinder
- curve2hints
- etraining
- fastBlockSearch
- filterBam
- getSeq
- getSeq-dist
- homGeneMapping
- joingenes
- prepareAlign
Link to section 'Module' of 'augustus' Module
You can load the modules by:
module load biocontainers
module load augustus/3.4.0
Link to section 'Example job' of 'augustus' 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 AUGUSTUS on our cluster:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 10:00:00
#SBATCH -N 1
#SBATCH -n 24
#SBATCH --job-name=AUGUSTUS
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers augustus/3.4.0
augustus --species=botrytis_cinerea genome.fasta > annotation.gff