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Project description
SpatialQuery is a package for fast query of Spatial Transcriptomics data.
Analysis of ST data in SpatialQuery
With annotated ST data as input, SpatialQuery first builds a k-D tree based on spatial location in each FOV for fast query of neighboring cell compositions. It is composed of methods for single-FOV and multiple-FOVs. In single-FOV, it contains methods:
- identify frequent patterns across FOV
- identify frequent patterns around cell type of interest
- identify statistically significant patterns around cell type of interest
For multiple-FOVs data, it contains methods:
- identify frequent patterns around cell type of interest in specified datasets
- identify statistically significant patterns around cell type of interest in specified datasets
- identify differential patterns across datasets
Installation
pip install -i https://test.pypi.org/simple/ SpatialQuery
For more details, please refer to examples/SpatialQuery-example.ipynb.
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