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:
$ qiime feature-table merge \
--i-table1 analysis1/table.qza \
--i-table2 analysis2/table.qza \
$ qiime feature-table merge-taxa-data \
--i-data1 analysis1/taxonomy.qza \
--i-data2 analysis2/taxonomy.qza \
Our FMT Tutorial covers a similar situation, merging data from two separate sequencing runs. Hope that helps!
Thank you very much. It helps a lot!