I have two RNA-seq experiments performed in different batches several months apart. Both experiments include technical replicates of the same 10 samples from condition A (with identical sample names: A1, A2, ..., A10). Exactly same control samples were used.

Experiment 1: 10 samples from condition A and 10 samples from condition B.

Experiment 2: 10 samples from condition A and 10 samples from condition C.

How can I use the technical replicates (condition A) to normalize for batch effects and perform differential gene expression analysis between conditions B and C?

I have processed my reads with kallisto so far and tximport.

I appreciate all your help!