Complex hierarchical structures analysis in single-cell data with Poincaré deep manifold transformation

Overview

Installation

1. Install dependencies: conda env create -f env.yaml

2. Activate environment: conda activate poincaredmt

Usage

1. Dimensionality reduction: python main.py

2. Batch correction: python main_batch_correction.py

3. Visualization and Pseudotime inference: python main_visualization_pseudotime.py

4. Gene selection: python main_gene_selection.py

5. Baseline: python main_baseline.py || main_baseline_batch_correction.py

Contact

If you have any problem about this package, please create an Issue or send us an Email at:

• Author: [Yongjie Xu][xuyongjie@westlake.edu.cn]
• Author: [Zelin Zang][zangzelin@westlake.edu.cn]