In reference to my previous question, I should let you know that the issue was just the quotes!
Adding quote=F will solve the problem
I successfully ran your plugin
Now, the issue is that
number of sOTUs reduce from ~300 to ~30
This ten-fold reduction in the number of taxa that go in and come out is huge.
It is possibly due to the fact with the data that was processed, I had to filter such that OTU prevalence is at least in 5% of my samples.
Can I reduce the threshold in your plugin
I’d like the OTU frequency threshold to be at 1% or 5%
I suppose I could try to play with the python code but I would not know where to start to get this working in the plugin.
Thank you very much for your help!!