Version Compatibility

Reference examples tested with: cooler 0.9+, cooltools 0.6+, matplotlib 3.8+, numpy 1.26+, pandas 2.2+

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

• Python: pip show <package> then help(module.function) to check signatures
• CLI: <tool> --version then <tool> --help to confirm flags

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

TAD Detection

"Call TADs from my Hi-C data" → Identify topologically associating domain boundaries using insulation score minima or other boundary-detection algorithms.

• Python: cooltools.insulation(clr, window_bp) then threshold boundary strength
• CLI: hicFindTADs (HiCExplorer)

Call topologically associating domains from Hi-C contact matrices.