Table 1 Methods comparison
From: LuxHMM: DNA methylation analysis with genome segmentation via hidden Markov model
Method | Methylation model | Algorithm for CpG correlation |
|---|---|---|
RADMeth | Beta-binomial | Weighted Z-test |
Metilene | Kolmogorov–Smirnov | Circular binary segmentation |
HMM-DM | Bayesian HMM | HMM |
DMRcate | Linear Gaussian (limma) | Kernel smoothing |
DSS | Beta-binomial | Smoothing via moving average |
LuxUS | Bayesian GLMM | Random effect correlation structure |
LuxHMM | Bayesian GLM | HMM |