Hi, I have a question about merging or grouping my replicate data sequences. I have processed my sequences separately but I would also like to combine them based upon sampling method.
For example, sample methods trialled: milling and blending of which I have 3 biological reps each with 3 technical reps. I would like to combine the technical reps within each biological rep as well as combining the biological replicates so that I can compare milling vs blending. I have labelled the samples as BT1.1, BT1.2 ...... BT2.1, BT2.2.... etc
I have tried the group feature table commands as per Best way to merge or group runs/samples but it seems to have only changed the original sample names to the replicate name e.g. SF### to BT1.1 etc, which I don't believe this is what I actually wanted. I am a bit confused as to if I have assessed it to early and need to follow through with the merge-seqs or merge-taxa commands but from reading about them they don't seem to the be commands that I need.
Is it possible to combine my technical and biological replicates in qiime?
I am using qiime 2021.4 on command line.