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

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ID: 328650
2026
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Abstract
Abstract Summary Cross-species Hi-C comparison remains challenging because existing workflows often rely on multiple scripts, heterogeneous I/O formats, and limited diagnostic support. We present coolsecture, a Python 3 command-line toolkit that integrates multiple contact-matrix and synteny formats with bidirectional lift-over and reciprocal consistency assessment, multi-resolution percentile-based comparison, diagnostic visualization, and cross-sample similarity analysis, providing a streamlined and reproducible framework for comparative Hi-C analysis. Availability and implementation coolsecture is distributed under the GPL-3 license. Source code, Snakemake workflows, and documentation are freely available at https://github.com/pk-zhu/Coolsecture and are archived on Figshare at https://doi.org/10.6084/m9.figshare.30158440
Reference Key
openalex_W7213453852 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Peng-Kai Zhu, Jiangqi Pan, Zhan-Chao Cheng, Jian Gao
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Journal BMC Bioinformatics
Year 2026
DOI
10.1093/bioinformatics/btag683
URL
https://doi.org/10.1093/bioinformatics/btag683
Keywords Keywords not found

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