HMAP: Hierarchical Manifold Approximation and Projection

HMAP develop a hierarchical deep generative topographic mapping algorithm to realize the recovery of both global and local manifolds underlying single-cell data.

Installation

1. Create a virtual environment and activate it

conda create -n HMAP python=3.10 scipy numpy pandas scikit-learn && conda activate HMAP

2. Install PyTorch following the official instruction.

pip3 install torch torchvision --index-url https://download.pytorch.org/whl/cu126

3. Install HMAP

pip3 install HMAP-tool

Reproducibility

See the Github repository for materials and tutorials required to reproduce the results.