you are unlikely to get substantive responses to this post for a couple reasons.

1) its a fairly technically complex process

2) the reader cant understand what level of knowledge you possess, or what you have tried yet on your own

3) there is a LOT written about this already in the published literature, as well as on website like Seurat3 or 4 or 8 or whatever version they are on

my suggestion would be that you start reading papers about cell cycle scoring and regression, which you will probably need to read about and perform anyway.

while you dont describe what is happening in your cells between time points, possibly the mathematics used for CCS/CCR are similar and you can go from there?

otherwise write a more detailed question and go from there.