CscoreTool: Fast Hi-C Compartment Analysis at High Resolution

Abstract

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

http://ift.tt/2jnwhEd.

Contact

xzheng@carnegiescience.edu

Supplementary information

Supplementary dataSupplementary data are available at Bioinformatics online.

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