GMD: Measuring the distance between histograms with applications on high-throughput sequencing reads

Abstract

Summary: GMD (generalized minimum distance of distributions) is an R package to assess the similarity between spatial distributions of read-based sequencing data such as ChIP-seq and RNA-seq. GMD calculates the optimal distance between pairs of normalized signal distributions, optionally sliding one distribution over the other to 'align' the distributions. GMD also provides graphical and downstream clustering tools. © The Author 2012. Published by Oxford University Press. All rights reserved.