George BourasLander De ConinckAlistair R. LegioneCamilo GarcíaMartin LarraldebioRoasteryGeorge E. ChlipalaHugo ÁvilaJoon KlapsPaul Mennig2026-03-222026-03-22202610.5281/zenodo.18221108https://doi.org/10.5281/zenodo.18221108https://andeanlibrary.org/handle/123456789/86293Adds pyrodigal-rv (see https://github.com/LanderDC/pyrodigal-rv) dependency as a gene predictor option that may be useful if you are annotating RNA phages (also RNA viruses generally perhaps, although YMMV) Use -g pyrodigal-rv to use this Fixes bug with incorrect translation table being passed when using -g prodigal and meta mode (usually for single phages, where they are too small to have a Prodigal model trained for them) - see #409 We recommend you use -g prodigal-gv (the default) if you have metagenomic datasets anyway Adds --reverse_mmseqs2 flag - this makes the PHROG MMseqs2 profile database the target not the query (thanks @simroux). This in only recommended for enormous datasets. Adds --sensitivity as a CLI option - controls MMseqs2 profile search sensitivityComputer scienceDependency (UML)Table (database)Flag (linear algebra)Data miningTranslation (biology)Information retrievalSensitivity (control systems)other