Software: Trimal
Description
Trimal is a tool for the automated removal of spurious sequences or poorly aligned regions from a multiple sequence alignment.
Available Versions
| Unspecified: | 1.4.1 |
|---|
For more information, please check its website: https://biocontainers.pro/tools/trimal and its home page: http://trimal.cgenomics.org.
Commands
- trimal
- readal
- statal
Module
You can load the modules by:
module load biocontainers
module load trimal
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 Trimal on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=trimal
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers trimal
trimal -in input.fasta -out output1 -htmlout output1.html -gt 1