Hierarchical Manifold Approximation and Projection for Single Cell Data
Project description
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
- Create a virtual environment and activate it
conda create -n HMAP python=3.10 scipy numpy pandas scikit-learn && conda activate HMAP
- Install PyTorch following the official instruction.
pip3 install torch torchvision --index-url https://download.pytorch.org/whl/cu126
- Install HMAP
pip3 install HMAP-tool
Reproducibility
See the Github repository for materials and tutorials required to reproduce the results.
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