Hello, I am a researcher who is new to microbiome studies. I am reaching out to seek advice and insights from those with more experience regarding some questions I have about using PICRUST2.
I have been processing and analyzing fastq files with dada2, and I am now interested in performing additional functional prediction analysis using PICRUST2.
My main question concerns the input sequences for PICRUST2.
Should I provide all unique sequences from the original, unfiltered fastq files, or should I use the sequences that have been filtered and processed by dada2?
Additionally, I would like to know if there are any other tools, besides PICRUST2, that are useful for pathway or functional analysis, such as KEGG or GO analysis.
I am aware that I can find information on the QIIME2 forum, but as of posting this, I have not yet found the answers I am looking for.
I would greatly appreciate any advice or help from the community. Thank you very much.