Analyze colocalization patterns between single cell gene expression profiles.
Project description
deepCOLOR: DEEP Generative model for single-cell COLOcalization Representation
DeepCOLOR is intended to analyze colocalization relation ships between single cell transcriptomes, integrating them with spatial transcriptome.
Instalation
You can install deepCOLOR using pip command from your shell.
pip install deepcolor imgaug==0.2.5
Usage
You need to prepare AnnData objects which includes raw count matrix of gene expression for single cell and spatial transcriptome respectively. You can see the usage in IPython Notebook.
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