Hello,
I've noticed that there is a discrepancy in the input format listed on the README.md, as it suggests to organize the otu table so taxa are rows, and columns are samples.
However, the format in the example file, (otu_example_multi.txt), has the rows as sample and OTUs as columns. This format is the one that works when running the commands.
Would it be possible to update the README.md to reflect this, as it caused some confusion for me so it may cause confusion for others as well.