lpipes / sars_cov_2_wastewater_surveillance Goto Github PK

This is a nice method! I'm a masters student at the University of Waterloo working on wastewater surveillance in Canada.

I wasn't able to get the tree imputation working but the common_allele method doesn't treat - as a known character which causes the method to impute gaps. This is probably undesirable since some omicron and delta have several deletions which are imputed to the most common base and then read as mismatches.