Software: gfastats
Description
gfastats is a single fast and exhaustive tool for summary statistics and simultaneous fa (fasta, fastq, gfa [.gz]) genome assembly file manipulation. gfastats also allows seamless fasta<>fastq<>gfa[.gz] conversion. It has been tested in genomes even >100Gbp.
Available Versions
| Unspecified: | 1.2.3 1.3.6 |
|---|
BioContainers: https://biocontainers.pro/tools/gfastats
Home page: https://github.com/vgl-hub/gfastats
Commands
- gfastats
Module
You can load the modules by:
module load biocontainers
module load gfastats
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 gfastats on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=gfastats
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers gfastats
gfastats input.fasta -o gfa