Quality

This workflow automates the evaluation of quality statistics on your genomes, Metagenome-Assembled Genomes (MAGs), or Single-Cell Amplified Genomes (SAGs).

To execute the workflow, run:

miga quality_wf -o my_project path/to/mags/*.fasta

For additional options, run:

miga quality_wf -h

Expected output

Once your run is complete, you may expect the standard summaries for cds, assembly, essential_genes, and ssu. In addition, if you pass the option --mytaxa-scan, you can expect the subdirectory mytaxa_scan including PDF reports for each input genome.