Is it possible to read in a .shared file (the one with a column for each OTU and a row for each group, listing the abundance of each OTU in each group)?
I’m trying to figure out how to do a transformation on my OTU abundance data prior to calculating similarity metrics. My best idea so far is to move the .shared file into R to do the transformation… but then can I get the transformed data back into mothur?
Thanks!
absolutely…
read.otu(shared=…)
dist.shared(calc=…)
Is this what you wanted?