DNA methylation has long been proven to be effecting gene expression. While the methylation of cytosine residue has been studied thoroughly, it has been recently found that more informative would be to study the spatial methylation of variation across the genomes.
Kapourani C.A. et.al.(2018) have recently developed a software package to quantify DNA methylation. They have used linear model of regression to develop this bioconductor package. The package has been developed taking care that it can run on diverse range of platforms.
The software is available at http://bioconductor.org/packages/BPRMeth
Kaourani C.A. et. al.(2018) BPRMeth: A flexible bioconductor package for modelling methylation profiles. Bioinformatics 34(14) 2485-2486