The dada-class$clustering data.frame includes a new column $birth_from which encodes the cluster (ASV) from which the associated cluster (ASV) was divided (or โbornโ).
Short sequences are now given NA assignments at all levels, rather than stopping the assignTaxonomy function entirely.
All uses of the class(x) == "y" idiom have been replaced by is(x, "y") to conform to current R best practices and Bioconductor build requirements.
A rare error in how the dada-class$clustering$birth_pval was calculated has been fixed.
Read lengths are now visualized correctly by plotQualityProfile(..., aggregate=TRUE).