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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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Can I use the singleM output based on the individual genes for analysis? #187

Open lcamVz opened 2 weeks ago

lcamVz commented 2 weeks ago

I have the output of singleM. But I wanted to ask if I can use the genes for example calculate and visualize the individual genes richness, etc or this is meant to use the singleM as a whole without any subset?

wwood commented 2 weeks ago

Hi,

There is nothing wrong with using individual genes to answer questions about diversity. Be watchful of sequencing error though, since they OTUs are 100% clustered and there is no error correction like e.g. dada2 applied.