minialign
Link to section 'Introduction' of 'minialign' Introduction
Minialign
is a little bit fast and moderately accurate nucleotide sequence alignment tool designed for PacBio and Nanopore long reads.
For more information, please check its website: https://biocontainers.pro/tools/minialign and its home page on Github.
Link to section 'Versions' of 'minialign' Versions
- 0.5.3
Link to section 'Commands' of 'minialign' Commands
- minialign
Link to section 'Module' of 'minialign' Module
You can load the modules by:
module load biocontainers
module load minialign
Link to section 'Example job' of 'minialign' 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 Minialign on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=minialign
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers minialign
minialign -d index.mai genome.fasta
minialign -l index.mai input.fastq > out.sam