I would like to have your idea on a topic.
I run Busco (the latest version) for genomes of six worm species using eukaryote and nematoda database separately, and received different completeness results in one species. the species had ~92 % completeness when I run eukaryote database and ~77 % completeness when I run nematoda database. Other five species had very close completeness in eukaryote and nematoda database.
Do you have any idea what may explain this difference?
I run same command except lineage (database).