Hi again,
I have a quick question, I almost forgot to look at the singletons in my table, and after looking over the file I realized that there are quite a few singletons present. Fungal-table-dada2.qzv (574.3 KB) . I attempted to filter them out using the following code:
Filter out singletons (Only 1 present)
*qiime feature-table filter-features *
--i-table Fungal-table-dada2.qza
--p-min-frequency 2
--o-filtered-table Fungal-table-dada2-ns.qza
#Verify removal of singletons and choose rarefaction depth
qiime feature-table summarize **
--i-table Fungal-table-dada2-ns.qza **
--o-visualization Fungal-table-dada2-ns.qzv **
--m-sample-metadata-file Metadata-Fungal.tsv
Fungal-table-dada2-ns.qzv (578.4 KB)
After comparing the files to see if the singletons were removed, I see that they in fact where not. I have used this code before, on a different dataset, and I was able to removes this time. I'm really unsure what of what I am doing wrong, and have looked at other post, and my code seems to be fine.
Any ideas?