DeepCOLOR is intended to analyze colocalization relation ships between single cell transcriptomes, integrating them with spatial transcriptome.

You can install deepCOLOR using pip command from your shell.

pip install deepcolor  imgaug==0.2.5

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.