AUGUSTUS 2016

Introduction

AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke, Oliver Keller, Stefanie König, Lizzy Gerischer and Katharina Hoff. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and syntenic genomic alignments. Since version 3.0 AUGUSTUS can also predict the genes simultaneously in several aligned genomes.

Installed versions

The currently installed versions are

On environment hpc-uniol-env
AUGUSTUS/3.2.3-intel-2016b-Python-2.7.12

On environment hpc-env/6.4
AUGUSTUS/3.2.3-intel-2018a-Python-2.7.14
AUGUSTUS/3.3-intel-2018a
AUGUSTUS/3.3.2-intel-2018a

On environment hpc-env/8.3
AUGUSTUS/3.3.3-foss-2019b

Using AUGUSTUS on the HPC cluster

If you want to work on the new environment, you must first switch to hpc-env/6.4 before loading the lpsolve module:

module load hpc-env/8.3       # this step is optional, but recommended to get the most current version
module load AUGUSTUS

Documentation

If you want a short introduction to the available commands, you can use the help function after loading the module. Just type in:

augustus --help

The full documentation of AUGUSTUS can be found here.