CscoreTool: Fast Hi-C Compartment Analysis at High Resolution.

Summary The genome-wide 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 A/B compartment prediction based on 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 datasets with low sequencing depth. Availability https://github.com/scoutzxb/CscoreTool. Contact [email protected]. Supplementary information Supplementary data are available at Bioinformatics online.