- graft: New option `--decoy_database` to exclude sequences which have a better diamond hit to a database of decoys than the sequences in the GraftM package.
- graft: New search method `diamond+hmmsearch` requiring hits to be detected by both hmmsearch and diamond.
- graft: Merging reads before taxonomic placement is now default.
- Removed dependency on skbio, instead use dendropy for tree parsing.
- Many bugfixes and internal code improvements.