Mauve

Introduction

Mauve is a system for constructing multiple genome alignments in the presence of large-scale evolutionary events such as rearrangement and inversion.

For more information, please check its website: https://biocontainers.pro/tools/mauve and its home page: http://darlinglab.org/mauve/.

Versions

  • 2.4.0

Commands

  • mauveAligner

  • progressiveMauve

Module

You can load the modules by:

module load biocontainers
module load mauve

Example job

Warning

Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.

To run Mauve on our clusters:

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

module --force purge
ml biocontainers mauve

mauveAligner seqs.fasta --output=mauveAligner_output

progressiveMauve --output=threeway.xmfa \
    --output-guide-tree=threeway.tree \
    --backbone-output=threeway.backbone genome1.gbk genome2.gbk genome3.gbk