Hi,
I’ve finished the mothur SOP until the step of OTUs and got the result files called: final.opti_mcc.0.03.subsample.shared and final.opti_mcc.0.03.cons.taxonomy. I want to use these two files to plot relative abundance at phylum level and genus level. However, I am confused of how to merge these two files to do the following steps. Are there any tutorials of using these results to generate relative abundance plot?
Thanks