I have found reads in my negative controls (one blank sample from the DNA extraction and a PCR negative control). So I've already denoising my data with DADA2, and I want to export my table.qza and my metadata to R for decontamination of my samples using the package decontam.
I've seen a lot of discussions in the forum about using decontam and I read decontam tutorial. But my main difficulty is how can I insert my table with my ASVs and my metadata correctly for analysis in R.
With my data entered, I understood that I need to follow the identification of contaminants by prevalence.
Here are my files:table-single.qza (212.1 KB)
sample-metadata.tsv (2.0 KB)
Thanks in advance