I'm using Tax4Fun in R to look for potential gene families for my 16S data. When the functional profiling (fctProfiling) is set as default, TRUE, I get a whole list of enzyme relative abundances which makes analysis difficult. If fctProfiling is set to False, the data collapse into fewer pathways, which is great and what I need.
However, reading the Tax4Fun 'manual', it mentioned this:
fctProfiling (optional): logical; if TRUE (default) the functional capabilities of microbial communities based on 16S data samples are computed using the pre-computed KEGG Ortholog reference profiles, and if FALSE the metabolic capabilities using the pre-computed KEGG Pathway reference profiles according to the MoP approach are computed.
I'm confused about what does "according to the MoP approach" mean? Googled "MoP/MoP-Pro" but no useful result showed up. Also, is collapsing to pathways with Tax4Fun similar to picrust hierarchy levels?
Thanks!
A mixture of pathways (MoP) is mentioned in the publication by the authors of Tax4Fun. See the attached article
http://drops.dagstuhl.de/opus/volltexte/2013/4238/pdf/p001-asshauer.pdf
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