GeneMark-ES

Overview

GeneMark-ES is software for gene prediction in eukaryotes.

Restrictions on use

The software is not open source, but may be used royalty free by academics. All users must abide by the Academic License Agreement. The software must be used for internal research purposes only. No commerical usage is allowed and no modification to the software permitted.

Set up procedure

Please load the modulefile to access the software:

module load apps/binapps/genemark-es/2.3

Before you use GeneMark-ES for the first time you need to copy a file from the install directory:

cp $GMES_HOME/.gmkey .

The dots in the above command are important.

Running the application

Serial batch job submission

• Make sure you have followed the ‘Set up procedure’.
• Create a batch submission script, for example:

#!/bin/bash
#$ -S /bin/bash
#$ -cwd
#$ -V

gm_es.pl all.fa

Parallel batch job submission

GeneMark-ES will not run on multiple cores.

Further info

• GeneMark website