Prodigal

Prodigal is a "fast, reliable protein-coding gene prediction for prokaryotic genomes."

Availability

Cluster	Module/Version
BOSE	module load prodigal/2.6.3
BGSC	N/A

Note: You can simply use module load prodigal to activate the most recently installed version of this software.

Arguments / Options

This is a list of arguments for the prodigal command that we wanted to highlight. You can reference the official cheat sheet on GitHub for a full list.

Option	Description
-h	Print the list of arguments

Sample Slurm Script

submit.sh

#!/bin/bash
# -- SLURM SETTINGS -- #
# [..] other settings here [..]

# The following settings are for the overall request to Slurm
#SBATCH --ntasks-per-node=32     # How many CPU cores do you want to request
#SBATCH --nodes=1                # How many nodes do you want to request

# -- SCRIPT COMMANDS -- #

# Load the needed modules
module load prodigal/2.6.3    # Load Prodigal
prodigal -i inputfile.fna -o gene-coordinates-out.gbk -a protein-translations-out.faa

Real Example

Has your research group used Prodigal in a project? Contact the HPC Team and we'd be glad to feature your work.

Citation

This software does not have any documented citation available. We recommend still citing the project in your papers to support the work of the developer(s).

Resources

• Official Website - GitHub
• Documentation