Software: Megan
Description
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.
Available Versions
| Unspecified: | 6.21.7 |
|---|
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/.
Commands
- MEGAN
- blast2lca
- blast2rma
- daa2info
- daa2rma
- daa-meganizer
- gc-assembler
- rma2info
- sam2rma
- references-annotator
Module
You can load the modules by:
module load biocontainers
module load 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
Example job
Using
#!/bin/sh -las shebang in the slurm job script will cause the failure of some biocontainer modules. Please use#!/bin/bashinstead.
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