Normalization suggestion

[paolabc]

Hi

I have 4 single cell experiment in two different time points (1 mutant and 1 wild-type in one time and 1 mutant and 1 wild-type in another time) and I integrated them. I would like to perform perturbation analysis by using MELD in my integrate object.

However I am not sure how to perform the normalization to evaluate the differences between mutant and wild-type comparition in one and another time point. I was thinking consider the time points as replicates equal what is done chordin loss-of-function example on the article, thus normalize them based on mutation. But since the time development is different, I think it is good normalize them by time, thus the wild-type and mutants at one time point will be normalized different from the another mutant and wild-type in another time point.

I would like to know if anyone has some suggestion how to perform this type of the analysis.

Thank you in advance for your hep.

Best,
Paola