prediction interpretation

[Gianl-msi]

The prediction tutorial notebook generates values between 0 and 5. Are those absolute expression changes? Or expression values post perturbation? If those are the final expression value, what's the fastest way to retrieve the unperturbed values?

[yhr91]

Thanks for your question. The output of the predict function is expression values post perturbation.

To retrieve unperturbed values you can simply call gears_model.ctrl_expression for average unperturbed state or gears_model.ctrl_adata for gene expression values for all control cells from the original dataset.