ncbi-table2asn
Link to section 'Introduction' of 'ncbi-table2asn' Introduction
table2asn is a command-line program that creates sequence records for submission to GenBank. It uses many of the same functions as Genome Workbench but is driven generally by data files, and the records it produces do not necessarily require additional manual editing before submission to GenBank.
Docker hub: https://hub.docker.com/r/staphb/ncbi-table2asn
Home page: https://www.ncbi.nlm.nih.gov/genbank/table2asn/
Link to section 'Versions' of 'ncbi-table2asn' Versions
- 1.26.678
Link to section 'Commands' of 'ncbi-table2asn' Commands
- table2asn
Link to section 'Module' of 'ncbi-table2asn' Module
You can load the modules by:
module load biocontainers
module load ncbi-table2asn
Link to section 'Example job' of 'ncbi-table2asn' 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 ncbi-table2asn on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=ncbi-table2asn
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers ncbi-table2asn