v0.2.0

Added

• [breaking] Add decoy protein sequences (RefSeq fungi, protozoa, viral, plant, and human GRCh38/hg38) which effectively trap non-prokaryotic reads and prevent them from inflating total prokaryotic genome copy estimates if the pre-filtering module (default with Kraken2) is not enabled. Pre-filtering is no longer necessary even if samples are contaminated with human DNA or other common eukaryotes/viruses, unless the mean genome size of prokaryotes needs to be estimated. See 8918168 for more details. This function requires a database released on or after 2024-06-28.

Changed

• Simplify filtering criteria for alignments.