Hi,

I am puzzled about this situation: if we have estimated a ComBat model for batch effects in dataset A, can we use this model to adjust batch effect for dataset B?

In another case, there are two batches, i.e., batch 1 and batch 2, in your dataset, but you just want to use 70% data of high quality to estimate and remove batch effects for batch 2 (if we set batch 1 as the reference batch). After estimating the model, we also need to adjust batch effects for the rest 30% data of batch 2, how can we do this?

Thanks in advance,

BP