Mummer4
Introduction
Mummer4
is a versatile alignment tool for DNA and protein sequences.
For more information, please check its website: https://biocontainers.pro/tools/mummer4 and its home page on Github.
Versions
4.0.0rc1-pl5262
Commands
annotate
combineMUMs
delta-filter
delta2vcf
dnadiff
exact-tandems
mummer
mummerplot
nucmer
promer
repeat-match
show-aligns
show-coords
show-diff
show-snps
show-tiling
Module
You can load the modules by:
module load biocontainers
module load mummer4
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 Mummer4 on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=mummer4
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers mummer4
mummer -mum -b -c H_pylori26695_Eslice.fasta H_pyloriJ99_Eslice.fasta > mummer.mums