wtdbg
Link to section 'Introduction' of 'wtdbg' Introduction
Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT).
For more information, please check its website: https://biocontainers.pro/tools/wtdbg and its home page on Github.
Link to section 'Versions' of 'wtdbg' Versions
- 2.5
Link to section 'Commands' of 'wtdbg' Commands
- wtdbg-cns
- wtdbg2
- wtpoa-cns
Link to section 'Module' of 'wtdbg' Module
You can load the modules by:
module load biocontainers
module load wtdbg
Link to section 'Example job' of 'wtdbg' 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 Wtdbg2 on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 24
#SBATCH --job-name=wtdbg
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers wtdbg
wtpoa-cns -t 24 -i dbg.ctg.lay.gz -fo dbg.ctg.fa