contrastiveVI

contrastiveVI [1] (contrastive variational inference; Python class ContrastiveVI) is a generative model for the contrastive analysis of scRNA-seq count data that can subsequently be used for many common downstream tasks.

Contrastive analysis requires a target (e.g., treated cells) and a background (e.g., control cells) dataset, and contrastiveVI is designed to isolate the variations enriched in target cells from variations shared with background cells.

Tutorials:

• Isolating perturbation-induced variations with contrastiveVI

Overview

Note

This page is under construction.

---

[1]

Ethan Weinberger, Chris Lin, Su-In Lee (2023), Isolating salient variations of interest in single-cell data with contrastiveVI, Nature Methods.