Merging data from different datasets

I have 2 datasets from iluminaseq and I need to merge them into a single feature table, is it possible to do that, and if so would it be at the time of writing the code to generate a feature table, or is there a previous step?

I remain attentive to any help

thanks to all

Hey Karina,

Because the error pattern is unique to each run, it's recommended to denoise each run separately and then merge your feature tables.

This only works if the exact same region is sequenced on both runs and the same trimming settings are used! (See this forum thread and GitHub issue.)

After dada2, run
merge: Combine multiple tables — QIIME 2 2022.8.3 documentation and
merge-seqs: Combine collections of feature sequences — QIIME 2 2022.8.3 documentation
then continue on to tax classification and diversity analysis.

(When I merge Illumina runs, I add a column to my metadata like runNumber so that I test for run-to-run variation after I merge.)

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