I have two different analyses in QIIME2 and both with table.qza taxonomy.qza files refer to manual. My question is how to combine results from two different analyses for a larger analysis. In QIIME 1.9 we have merge_otu_tables.py, do we have similar function in QIIME2 ?
Hi @Yujun! The feature-table plugin has support for just what you’re asking! You can merge the feature tables by running merge, and the taxonomy feature data by running merge-taxa-data. A quick example: