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Hi everyone,
I have got an OTU table and want to calculate pure compositional distance for each sample pair. That means no OTU abundance and no phylogenetic structure being considered. Is there a metric in beta_diversity.py able to do this?
Kyle Bittinger
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Nov 13, 2015, 12:52:26 PM11/13/15
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No, you have to do this yourself. I recommend exporting the table to tsv format using "biom convert".
What specific transformation will you use (alr, clr, etc) and how will you deal with zeros in your data?