Table 1.

Comparison of DMR calling software

Program	DMR Identification	Execution
Defiant	Weighted Welch Expansion	Binary
BSmooth [23]	Local-likelihood smoothing with binomial test	R
MethylKit [25]	Fisher’s exact test [37] or logistic regression with tiling	R
MethylSig [26]	beta-binomial [64]	R
Metilene [27]	p-value by beta binomial	Binary
MOABS [65]	beta-binomial	Binary
RADMeth [28]	beta-binomial regression	Binary