DiffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data.

ABSTRACT:

Background

Chromatin conformation capture with high-throughput sequencing (Hi-C) is a technique that measures the in vivo intensity of interactions between all pairs of loci in the genome. Most conventional analyses of Hi-C data focus on the detection of statistically significant interactions. However, an alternative strategy involves identifying significant changes in the interaction intensity (i.e., differential interactions) between two or more biological conditions. This is more statistically rigorous and may provide more biologically relevant results.

Results

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 l

SUBMITTER: Lun AT 

PROVIDER: S-EPMC4539688 | biostudies-literature | 2015 Aug

REPOSITORIES: biostudies-literature