diffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data.BACKGROUND
 Here, we present the diffHic software package for the detection of differential interactions from Hi-C data.  diffHic provides methods for read pair alignment and processing, counting into bin pairs, filtering out low-abundance events and normalization of trended or CNV-driven biases.  The use of diffHic is demonstrated with real Hi-C data sets.  On real data, diffHic is able to successfully detect interactions with significant differences in intensity between biological conditions.  These results suggest that diffHic is a viable approach for differential analyses of Hi-C data.
diffHic