Braker

Description

braker website  

BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET and AUGUSTUS in novel eukaryotic genomes

Environment Modules

Run module spider braker to find out what environment modules are available for this application.

System Variables

• HPC_BRAKER_DIR - installation directory
• HPC_BRAKER_BIN - executable directory

Additional Information

Prior to running braker, you will need to copy the AUGUSTUS_CONFIG_PATH to your working directory:

$ cd /path/to/blue/working/directory

$ module load braker

$ cp -r $AUGUSTUS_CONFIG_PATH .

After loading the module in your job script, you will need to export the path to the config directory:

export AUGUSTUS_CONFIG_PATH=/path/to/blue/working/directory/config

Citation

If you publish research that uses braker you have to cite it as follows:

https://github.com/Gaius-Augustus/BRAKER#citing-braker-and-software-called-by-braker