ragtag
Link to section 'Introduction' of 'ragtag' Introduction
Ragtag is a tool for fast reference-guided genome assembly scaffolding.
For more information, please check its website: https://biocontainers.pro/tools/ragtag and its home page on Github.
Link to section 'Versions' of 'ragtag' Versions
- 2.1.0
Link to section 'Commands' of 'ragtag' Commands
- ragtag.py
Link to section 'Module' of 'ragtag' Module
You can load the modules by:
module load biocontainers
module load ragtag
Link to section 'Example job' of 'ragtag' 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 Ragtag on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=ragtag
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers ragtag
ragtag.py correct ref.fasta query.fasta
ragtag.py patch target.fa query.fa