Shokoohi F (2020). DMCHMM: an R package to identify differentially methylated CpG Sites using Hidden Markov Models, Version 1.11.1, DOI: 10.18129/B9.bioc.DMCHMM. http://bioconductor.org/packages/DMCHMM/.

Shokoohi F, Stephens D, Bourque G, Pastinen T, Greenwood C, Labbe A (2018). “A Hidden Markov Model for Identifying Differentially Methylated Sites in Bisulfite Sequencing Data.” Biometrics, 75. https://doi.org/10.1111/biom.12965.