I have some questions related to analyzing my data at the level of phylum (L5).
I would like to do a PCA using R on my dataset which I clean them manually. The dataset stored in csv format. How can I do that without using phyloseq function? Because I do not have access to the previous output of qiime analysis that has been done by someone else.
I brought a small part of the data. The data format is like the following:
Thanks for your time!