This workflow will (1) trim adapter sequences using
fastp_known_adapters_formatted.fna, (2) filter reads mapping to a selected host genome (if a host is selected), and (3) run resulting sequences against WoLr2 with Woltka to generate per-genome and per-gene feature-tables at various taxonomic and functional levels.
This workflow relies on fastp, minimap2, and Woltka.
More infoNote that the current recommendation is to run Woltka with the two available databases: RS210 and WoLr2 as they give different perspectives from the same data. Additionally, this workflow starts from the rawest data available.
Note that, for human host samples, human sequence removal must be completed independently BEFORE upload to comply with Qiita’s
Terms of Use.