Version Compatibility

Reference examples tested with: cooler 0.9+, cooltools 0.6+, numpy 1.26+, pandas 2.2+, scipy 1.12+

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.

Hi-C Matrix Operations

"Normalize my Hi-C contact matrix" → Apply iterative correction (ICE/KR balancing), compute distance-decay expected values, and generate observed/expected ratio matrices.

• Python: cooler.balance_cooler(clr), cooltools.expected_cis(clr)

Balance, normalize, and transform contact matrices.

Required Imports