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raeslab / omixer-rpm

A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.
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Low % of uniref90 genefamilies mapped to KOs #11

Open qutkat opened 3 weeks ago

qutkat commented 3 weeks ago

Hi there,

I was planning to use KO annotations in HUMAnN3 to feed into omixer-rpm, but when I do this only about 4% of reads are mapping to KOs and the rest are ungrouped. I'm just wondering if this was your experience when you used this method, and if there are any alternatives for mapping to KOs more successfully?

Many thanks, Katherine

omixer commented 2 weeks ago

Hi,

I am not sure why you get only 4 % of reads mapped. Did you ask this question on the HUMAnN3 forum?