Check inputs for Verkko

Coverage check

Verkko is designed to use both PacBio HiFi and ONT long-read data. Before assembly, verify that each dataset provides sufficient depth. As a practical baseline, we recommend at least 40x coverage for both HiFi and ONT, with 60x or higher preferred for improved assembly continuity and phasing performance.

Coverage can be estimated as:

$$ ext{coverage} = \frac{\text{total sequenced bases}}{\text{haploid genome size (bp)}} $$

where total sequenced bases is the sum of read lengths across all reads in the dataset.

You can use script below:

# to be added