blobtools
BlobTools is a modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets.
Detailed usage can be found here: https://github.com/DRL/blobtools
Link to section 'Versions' of 'blobtools' Versions
- 1.1.1
Link to section 'Commands' of 'blobtools' Commands
- blobtools
Link to section 'Module' of 'blobtools' Module
You can load the modules by:
module load biocontainers
module load blobtools/1.1.1
Link to section 'Example job' of 'blobtools' 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 blobtools on our our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 4
#SBATCH --job-name=blobtools
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers blobtools/1.1.1
blobtools create -i example/assembly.fna -b example/mapping_1.sorted.bam -t example/blast.out -o test && \
blobtools view -i test.blobDB.json && \
blobtools plot -i test.blobDB.json