Hi @akknight216, unfortunately we can’t help you with phyloseq, because that software is not developed by us. I would suggest contacting them on their support page with any specific questions.
As far as exporting your feature table to TSV, we can modify the instructions prepared by @jairideout:
qiime tools export table.qza --output-dir exported
biom convert -i exported/feature-table.biom -o feature-table.tsv --to-tsv
This uses the biom cli tool to convert the exported HDF5 version of the feature table to a TSV. We have discussed supporting format transformations at export time, so if/when that happens, this command most likely won’t be necessary. Hope that helps!