(development for M3D) Identifies differentially methylated regions across testing groups

CpGsDemo | Toy data for the package - 1000 CpG regions to be tested in a... |

determineGroupComps | Creates strings of sample pair comparisons |

findComps | Finds columns in the M3D test-statistic matrix |

M3Ddevel | 'M3Ddevel': Uses the M3D method to find DMRs in bisufite... |

M3D-package | Non-parametric statistical testing |

M3D_Para | Computes the components of the M3D test-statistic over all... |

M3D_Para_lite | Computes the components of the M3D test-statistic over all... |

M3D_Single | Computes the components of the M3D test-statistic over one... |

M3D_Wrapper | Computes the components of the M3D test-statistic over all... |

M3D_Wrapper_lite | Computes the components of the M3D test-statistic over all... |

median_freq | Finds the median |

medianFreq | Finds the median |

MMDlistDemo | Toy data for the package - the output of the M3D_Wrapper... |

PDemo | Toy data for the package - the output of the pvals function. |

plotMethProfile | Plots methylation profiles over a specific region |

pvals | Computes p-values |

pvals_lite | Computes p-values |

readENCODEdata | Reads in ENCODE RRBS data |

rrbsDemo | Toy data for the package - methylation data for cytosines... |

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