spcoral 0.0.1

A python package for registering and integrating cross-model spatial omics

SPCoral: A package for Spatial Cross multi-Omics Registration and AnaLysis

Brief Introduction

SPCoral is a Python package designed for diagonal integration of spatial multi-omics data from adjacent tissue slices. It comprises two modules: Alignment and Integration. The alignment module employs graph neural networks and Gromov-Wasserstein optimal transport to perform slice-to-slice positional alignment without relying on shared molecular features. The integration module builds upon these aligned coordinates, using a cross-modal attention mechanism to fuse molecular features across different modalities and resolutions. SPCoral supports a variety of downstream applications, including spatial domain identification, cross-omics prediction, spatial cell-cell communication inference, and other spatial multi-omics analyses.

Installation

pip:

    pip install spcoral

github:

    cd spcoral
    python setup.py build
    python setup.py install