Spatial Analysis

PathML is a full-featured computational pathology toolkit for analyzing whole-slide pathology images. It supports 160+ slide formats, provides preprocessing pipelines for H&E stain normalization and tissue detection, includes pre-trained models for nucleus segmentation, enables graph-based spatial analysis, and supports multiparametric imaging platforms like CODEX and Vectra for spatial proteomics workflows.

Python library for working with geospatial vector data including shapefiles, GeoJSON, and GeoPackage files. Use when working with geographic data for spatial analysis, geometric operations, coordinate transformations, spatial joins, overlay operations, choropleth mapping, or any task involving reading/writing/analyzing vector geographic data. Supports PostGIS databases, interactive maps, and integration with matplotlib/folium/cartopy. Use for tasks like buffer analysis, spatial joins between datasets, dissolving boundaries, clipping data, calculating areas/distances, reprojecting coordinate systems, creating maps, or converting between spatial file formats.