Nature CommunicationsBioinformaticsPeer-reviewed journal article
Chromosight: A computer vision program for pattern detection in chromosome contact maps
Cyril Matthey-DoretiD, Lyam BaudryiD, Axel Breuer, Rémi MontagneiD, Nadège GuiglielmoniiD, Vittore F. ScolariiD, Étienne Jean, Arnaud Campeas, Philippe Henri Chanut, Edgar OrioliD, Adrien Méot, Laurent Politis, A. VigourouxiD, Pierrick MoreauiD, Romain KoszuliD, Axel CournaciD
Abstract
Chromosomes of all species studied so far display a variety of higher order organizational features such as domains or loops often associated to biological functions and visible on Hi-C contact maps. We developed Chromosight, an algorithm inspired from computer vision that can detect patterns in Hi-C maps. Chromosight has greater sensitivity than existing methods, while being faster and applicable to any type of genomes, including bacteria, viruses, yeasts and mammals. Code and documentation: https://github.com/koszullab/chromosight
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