CPA - Compositional Perturbation Autoencoder

What is CPA?

CPA is a framework to learn effects of perturbations at the single-cell level. CPA encodes and learns phenotypic drug response across different cell types, doses and drug combinations. CPA allows:

• Out-of-distribution predictions of unseen drug and gene combinations at various doses and among different cell types.

• Learn interpretable drug and cell-type latent spaces.

• Estimate the dose-response curve for each perturbation and their combinations.

• Transfer pertubration effects from on cell-type to an unseen cell-type.

• Enable batch effect removal on a latent space and also gene expression space.

Getting started

To get started with CPA, please follow the installation instructions in the Installation section.

Support and contribute

If you have a question or new architecture or a model that could be integrated into our pipeline, you can post an issue.