Purdue University

megan

Link to section 'Introduction' of 'megan' Introduction

Megan is a computer program that allows optimized analysis of large metagenomic datasets. Metagenomics is the analysis of the genomic sequences from a usually uncultured environmental sample.

For more information, please check its website: https://biocontainers.pro/tools/megan and its home page: https://uni-tuebingen.de/fakultaeten/mathematisch-naturwissenschaftliche-fakultaet/fachbereiche/informatik/lehrstuehle/algorithms-in-bioinformatics/software/megan6/.

Link to section 'Versions' of 'megan' Versions

• 6.21.7

Link to section 'Commands' of 'megan' Commands

• MEGAN
• blast2lca
• blast2rma
• daa2info
• daa2rma
• daa-meganizer
• gc-assembler
• rma2info
• sam2rma
• references-annotator

Link to section 'Module' of 'megan' Module

You can load the modules by:

module load biocontainers
module load megan

Link to section 'GUI' of 'megan' GUI

To run MEGAN with GUI, it is recommended to run within ThinLinc:

(base) UserID@bell-fe00:~ $ sinteractive -N1 -n12 -t4:00:00 -A myallocation
salloc: Granted job allocation 12345869
salloc: Waiting for resource configuration
salloc: Nodes bell-a008 are ready for job
(base) UserID@bell-a008:~ $ module load biocontainers megan
(base) UserID@bell-a008:~ $ MEGAN

Link to section 'Example job' of 'megan' Example job

To run Megan on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name 
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=megan
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers megan