HiCcompare

HiCcompare is a normalization technique for multiple Hi-C datasets to remove biases unique to each dataset. It uses cyclic loess regression and the general linear model framework for comparative analysis of multiple Hi-C datasets, and handles the Hi-C-specific decay of chromatin interaction frequencies with the increasing distance between interacting regions. HiCcompare outperforms other methods when detecting a priori known chromatin interaction differences from jointly normalized datasets.