This workflow is designed to annotate the genes a set of genomes (nucleotide fasta files) with InterProScan and MetaCyc pathways and other genome properties.
- Silas Kieser (@silask)
For now, InterProScan v5 and genomeProperties should be installed. In future this installation will be automated.
snakemake --config input="path/to/genome.fasta"
or for a set of genomes:
snakemake --config input="path/to/genomes"
For more detailed configuration see the config.yaml
Execute the workflow locally via
snakemake --cores $N
using $N cores or run it in a cluster environment via
snakemake --cluster qsub --jobs 100
or
snakemake --drmaa --jobs 100
See the Snakemake documentation for further details.