Hi @Evelyn_Campbell! There were a lot of changes done to corncob before it was accepted for publication but I’m going to work with Bryan Martin (corncob’s developer) to update q2-corncob over the next month after the holidays. I would suggest in the mean time what you could do is export your data from qiime2 and use it with corncob in R!
The easiest way to do that would be to export the biom table, metadata, and taxonomy information from qiime2 and create a phyloseq object in R. There’s a really nice tutorial on how to do that here: Tutorial: Integrating QIIME2 and R for data visualization and analysis using qiime2R
Let me know if you have any further questions or need further help getting things started!
Pauline