mmseqs2
Link to section 'Introduction' of 'mmseqs2' Introduction
Mmseqs2 is a software suite to search and cluster huge protein and nucleotide sequence sets.
For more information, please check its website: https://biocontainers.pro/tools/mmseqs2 and its home page on Github.
Link to section 'Versions' of 'mmseqs2' Versions
- 13.45111
- 14.7e284
Link to section 'Commands' of 'mmseqs2' Commands
- mmseqs
Link to section 'Module' of 'mmseqs2' Module
You can load the modules by:
module load biocontainers
module load mmseqs2
Link to section 'Example job' of 'mmseqs2' Example job
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 Mmseqs2 on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=mmseqs2
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers mmseqs2
mmseqs createdb examples/DB.fasta targetDB
mmseqs createtaxdb targetDB tmp
mmseqs createindex targetDB tmp
mmseqs easy-taxonomy examples/QUERY.fasta targetDB alnRes tmp