phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:
I am analysing metabarcoding data to study the diet of an animal. So, I have my samples in rows and the taxa identified in columns. I did rarefy_even_depth and I lost about 100 samples out of 500.
I'm working with relative abundances and I would like to know if it is correct to put 0 to the discarded samples as relative abundance for the taxa identified in the other samples. Basically, Im supposing that since the discarded samples do not have enough reads is like they have 0 abundance. I hope I was clear enough.
Hi all,
I am analysing metabarcoding data to study the diet of an animal. So, I have my samples in rows and the taxa identified in columns. I did rarefy_even_depth and I lost about 100 samples out of 500.
I'm working with relative abundances and I would like to know if it is correct to put 0 to the discarded samples as relative abundance for the taxa identified in the other samples. Basically, Im supposing that since the discarded samples do not have enough reads is like they have 0 abundance. I hope I was clear enough.
Thank you in advance!