Software: Abacas
Description
Abacas is a tool for algorithm based automatic contiguation of assembled sequences.
Available Versions
Unspecified: | 1.3.1 |
---|
Versions
- 1.3.1
Commands
- abacas.pl
- abacas.1.3.1.pl
Module
You can load the modules by:
module load biocontainers
module load abacas
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 Abacas on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=abacas
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers abacas
abacas.pl -r cmm.fasta -q Cm.contigs.fasta -p nucmer -o out_prefix