I am trying to perform picrust analysis on nephele results that were given to me by a past colleague. My colleague provided me with a biom table (otu_table_mc2_w_tax_no_pynast_failures.biom), map.txt and tree.tre. That’s it.
I am trying to massage these files into a format I can use with picrust2.
I attempted to import these files into qiime2 and I was able to extract the feature table and taxonomy from the biom file. However, the qiime2-picrust2 pipeline appears to want ASV count and ASV seq.
I saw another article that said the issue was my otu_table_mc2_w_tax_no_pynast_failures.biom was in a newer .biom format so I converted it to json and that still didn’t work.
I’ve already imported these nephele results into R as a phyloseq object so I began looking for options to create a picrust2 OTU table from a phyloseq object - I came up empty-handed.
I tried to install QIIME1 but given that I am a mac user (and it is wayyyyy outdated) that was not a viable feat.
Is there ANY way for me to get a picrust2 compatible OTU table from nephele results or a phyloseq object (created from the nephele results)
Thanks in advance for ANY help you can offer. I’ve been wracking my brain for days now and I am about to throw my computer out the window. I apologize in advance if this question has been asked before - I did look!