CscoreTool: Fast Hi-C Compartment Analysis at High Resolution

SummaryThe chromosome conformation capture (Hi-C) has revealed that the eukaryotic genome can be partitioned into A and B compartments that have distinctive chromatin and transcription features. Current Principle Component Analyses (PCA)-based method for the prediction of A/B compartment prediction from Hi-C data requires substantial CPU time and memory. We report the development of a method, CscoreTool, that enables fast and memory-efficient determination of A/B compartments at high resolution even in dataset with low sequencing depth.Availabilitygithub.com/scoutzxb/CscoreToolContactxzheng@carnegiescience.edu