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.

For more information, please check:
Docker hub: https://hub.docker.com/r/staphb/ncbi-table2asn
Home page: https://www.ncbi.nlm.nih.gov/genbank/table2asn/

Versions

  • 1.26.678

Commands

  • table2asn

Module

You can load the modules by:

module load biocontainers
module load ncbi-table2asn

Example job

Warning

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