Version Compatibility

Reference examples tested with: Cellpose 3.0+, matplotlib 3.8+, numpy 1.26+, pandas 2.2+, scanpy 1.10+, scikit-learn 1.4+, scipy 1.12+, squidpy 1.3+

Before using code patterns, verify installed versions match. If versions differ:

• Python: pip show <package> then help(module.function) to check signatures

If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying.

Image Analysis for Spatial Transcriptomics

"Segment cells in my tissue image" → Extract image features, segment nuclei/cells, and compute morphological features from H&E or immunofluorescence images paired with spatial data.

• Python: squidpy.im.process(), squidpy.im.segment() with Cellpose backend

Extract features and segment tissue images in spatial transcriptomics data.

Required Imports