differential-expression

This document provides detailed information about differential expression (DE) analysis using scvi-tools' probabilistic framework.

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Content

# Differential Expression Analysis in scvi-tools

This document provides detailed information about differential expression (DE) analysis using scvi-tools' probabilistic framework.

## Overview

scvi-tools implements Bayesian differential expression testing that leverages the learned generative models to estimate expression differences between groups. This approach provides several advantages over traditional methods:

- **Batch correction**: DE testing on batch-corrected representations
- **Uncertainty quantification**: Probabilistic estimates of effect sizes
- **Zero-inflation handling**: Pr

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