HistoMap is a Python library for analyzing and visualizing histological annotations alongside spatially resolved transcriptomics data (Visium). It provides tools for processing, analyzing, and visualizing GeoJSON-based tissue annotations with spatial transcriptomics spot data.
It is integrated with QuPath and ImageJ annotations, and interface with scanpy, squidpy and Seurat through either SpatialData or generation of MetaData.
Documentation is available here : https://histomaptx.readthedocs.io/en/latest/
