scLeap

scLeap is a pre-trained deep learning framework designed to predict genes driving cell-state transitions with single-cell CRISPR screening data.

Getting Started

Installation

1. Clone the repo

git clone https://github.com/DLS5-Omics/scLeap.git

2. Install python dependencies

pip install -r requirements.txt

Tutorials

Please refer to tutorials/README.md.

Datasets provided for tutorial

The full descriptions of the datasets and the studies of origin can be found in the manuscript. Here we provide the links to the pretrained model and the example datasets.

Pretrained model

• Pretrained model checkpoint and gene2token file: link

Example datasets

• Example training and testing datasets, with adjacency matrix graph and shortest path graph provided: link

Citation