trvaep

Introduction

A pytorch implementation of trVAE (transfer Variational Autoencoder). trVAE is a deep generative model which learns mapping between multiple different styles (conditions). trVAE can be used for style transfer on images, predicting single-cell perturbations responses and batch removal.

Getting Started

Installation

Installation with pip

To install the latest version from PyPI, simply use the following bash script:

pip install trvaep

or install the development version via pip:

pip install git+https://github.com/theislab/trvaep.git

or you can first install flit and clone this repository:

pip install flit
git clone https://github.com/theislab/trvaep
cd trvaep
flit install

Examples

For simple perturbation prediction and batch-removal check this example with interferon (IFN)-β stimulation from Kang et al..
For multi condition perturbation prediction and batch-removal check this example with multiple infections from Haber et al..

Reproducing paper results:

In order to reproduce paper results visit here.