Software: Unicycler
Description
Unicycler is an assembly pipeline for bacterial genomes.
Available Versions
Unspecified: | 0.5.0 |
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For more information, please check its website: https://biocontainers.pro/tools/unicycler and its home page on Github.
Commands
- unicycler
Module
You can load the modules by:
module load biocontainers
module load unicycler
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 Unicycler on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 12
#SBATCH --job-name=unicycler
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers unicycler
unicycler -t 12 -1 SRR11234553_1.fastq -2 SRR11234553_2.fastq -o shortout
unicycler -t 12 -l SRR3982487.fastq -o longout