I want to keep the singleM for both prokaryiotic and eukaryotic

wwood / singlem

Novelty-inclusive microbial community profiling of shotgun metagenomes

http://wwood.github.io/singlem/

GNU General Public License v3.0

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I want to keep the singleM for both prokaryiotic and eukaryotic #191

Open lcamVz opened 3 months ago

lcamVz commented 3 months ago

I have the singleM otu tables; I want to combine them and construct a per-site matrix. When I did that, I only got the prokaryotic members; how can I get this from all of the otus identified with singleM?

Thank you in advance.

wwood commented 2 months ago

Hi, Apologies for the slow response. When you are combining them, what method are you using? Right now the condense method removes eukaryotic OTUs because these aren't appropriate to use with eukaryotes, for various reasons e.g. the genes may not be single copy.