This script is vastly outdated. I highly recommend you to treat your data with NanoASV instead of Epi2ME

https://github.com/ImagoXV/NanoASV

Epi2me_16S_barcoding_output_converter - POS

This piece of script (POS) might as well be a piece of shit, but it's working. Make sure you use it in a new empty directory. Just add your EPI2ME 16S barcoding output csv in the directory.

Run the code

There you go

Problems noted : Unclassified taxa are merged into one global unclassified one. That's really a shame, but EPI2ME does not give associated ASV ID or anything allowing us to climb back to clustering informations.