StripePy

StripePy detects and analyzes architectural stripes in Chromosome Conformation Capture contact maps (3C, Hi-C, Micro-C) to characterize chromosomal architecture relevant to gene regulation, development, and DNA repair.

Key Features:

• Computational Geometry Methods: Employs computational geometry techniques to identify architectural stripes in Hi-C, Micro-C, and other 3C-derived contact maps.
• Benchmark-validated Performance: Validated on multiple real-world datasets and the simulated benchmark StripeBench, demonstrating superior performance compared to existing methods.

Scientific Applications:

• Gene Regulation: Identification of architectural stripes to support studies of gene regulation mechanisms.
• Developmental Biology: Analysis of chromosomal architecture changes during development.
• DNA Repair Mechanisms: Investigation of spatial organization relevant to DNA repair processes.

Methodology:

Applies computational geometry to detect and analyze architectural stripes in contact maps derived from Chromosome Conformation Capture experiments, including Hi-C and Micro-C, and was validated on real-world datasets and the simulated benchmark StripeBench.