ALPS R/Bioconductor package provides tools for analysis of genome-wide epigenomics data. Please check Bioconductor webpage for manual.

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("ALPS")

For questions, suggestions, please contact thatikonda92 [at] gmail [dot] com or @nerd_yie