Hello, quick query!
I have been processing data from a PacBio SMRT CSS experiment in dada2 with the intention of importing this data into qiime2 for the taxonomic assignments and taxonomy based filtering.
I ran Dada2 separately in R according to a couple of guides (Primarily this guide, but also [this] (DADA2 + PacBio: Fecal Samples) one) as I read that the version of dada2 buiild into qiime2 will not handle the long read CSS data. I then exported the sequence table and rep-seqs using the guidance from Jaroslaw [here] (Exporting DADA2 (R package) results to work with qiime2) (thanks!).
Upon importing into qiime2 I tried to use feature-table summarise to check the import worked okay. I got an error saying the ID V1 was not present in the metadata. After looking at the files it appeared that the files no longer match my metadata, and that the sample information has been lost? When I ran feature-table tabulate-seqs the sequences have no FeatureID. is there something further up the pipeline I should have done to maintain this information?
Thank you for any help you can offer!
Qiime2 version 2021.4
dada2 version 1.18.0 ran through R version 4.0.3