Coolsecture: an easy-to-use and improved framework for cross-species Hi-C contact map comparison.

Coolsecture enables streamlined, reproducible cross-species Hi-C contact map comparisons with high accuracy and diagnostic support.

• Why it matters: Comparing Hi-C contact maps across species is difficult due to complex workflows, inconsistent formats, and limited diagnostic tools, hindering evolutionary and structural insights.
• What they did: The authors developed coolsecture, a Python 3 toolkit that integrates multiple data formats, offers bidirectional lift-over, reciprocal assessment, multi-resolution comparison, and visualization, with 3,000+ lines of code and workflows.
• The result: Coolsecture simplifies cross-species Hi-C analysis, improves accuracy, and facilitates reproducibility, enabling researchers to better understand genome architecture evolution and structural variation.