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/.
Versions¶
3.4.0
3.5.0
Commands¶
aln2wig
augustus
bam2wig
bam2wig-dist
consensusFinder
curve2hints
etraining
fastBlockSearch
filterBam
getSeq
getSeq-dist
homGeneMapping
joingenes
prepareAlign
Module¶
You can load the modules by:
module load biocontainers
module load augustus/3.4.0
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 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