- Input files can now be relative abundance tables. Note that if a relative abundance table is supplied, the
--c2 / --pairwise_comparission_cutoff
cannot be set to absolute read counts, as was done in the paper (with 5 reads). - Both
--c1 / --presence_cutoff
and--c2 / --pairwise_comparisson_cutoff
can now be set to 0 to consider all taxonomic lineages with a non-zero abundance.