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TillMacher / apscale_gui

Advanced Pipeline for Simple yet Comprehensive AnaLysEs of DNA metabarcoding data
https://pypi.org/project/apscale-gui/
MIT License
6 stars 1 forks source link

OTU clustering, Boldigger3 #14

Open lukazuvic opened 3 weeks ago

lukazuvic commented 3 weeks ago

Hi Till, I noticed that you removed OTU clustering in newer versions of apscale and apslcale_gui. I was wondering if you'll put it back in at some point or if you'll discard it completely (after all, ESV clustering has been shown to outperform OTU-based clustering methods :) ), and also will you include Boldigger3 in future versions of the apscale_gui?

BR, Luka

TillMacher commented 3 weeks ago

Hi Luka,

indeed the OTU clustering will be gone for all newer versions of Apscale (and also apscale-GUI). As you mentioned, ESV denoising outperforms OTU clustering. So there is no reason to keep it in!

I am currently implementing BOLDigger3! There will be an update coming very soon!

best Till