Table 1. Software of DMR detection.

Software	Method	Samples	Replicates
DSS	Dispersion shrinkage estimate Gamma-Poisson or Beta-Binomial distributions	two groups	yes
bsseq	Smoothing t-test	two groups	yes
methylSig	Beta-binomial	two groups	yes
eDMR	Expectation maximization (EM) algorithm to fit to a bimodal normal distribution	two groups	yes
MOABS	Beta-Binomial hierarchical model	two groups	yes
BiSeq	Design for targeted BS data (RRBS)	two or groups	no
CpG_MPs	Combined hotspot and entropy theory	two or more	no
ComMet	Use HMM model to identify DMR (a tool of bisulfighter).	two	no