BLCA

 This data set contains one pair of M-values of BLCA chr18 from 
	The Cancer Genome Atlas TCGA (TCGA).
	In addition, it contains the distance between each probes and the 
	gold standard methylation status getting by the matched WGBS data 
	(also from TCGA).

Perform differential analysis for
methylation array data. Detect differentially
methylated regions (DMRs) from array M-values.
The core is a Non-homogeneous Hidden Markov Model
for estimating spatial correlation and a novel Constrained
Gaussian Mixture Model for modeling the M-value pairs of each individual locus.

Linghao SHEN

DMRMark

DMR Detection by Non-Homogeneous Hidden Markov Model from
Methylation Array Data

BLCA function

A List with the following items, all items will length 5492 corresponding
  to the Illumina 450K probes on chr18:
  <dl class="dl-horizontal">
	<dt>mv</dt><dd>A matrix with one pair of M-values</dd>
	<dt>distance</dt><dd>a numeric vector of the probe distance</dd>
	<dt>truth</dt><dd>a binary vector represents the WGBS 
	methylation status (0-nDML, 1-DML)</dd>
  </dl>

Format

Single paired M-values of BLCA chr18 from TCGA — BLCA

A List with the following items, all items will length 5492 corresponding
  to the Illumina 450K probes on chr18:
  <dl class='dl-horizontal'>
	<dt>mv</dt><dd>A matrix with one pair of M-values</dd>
	<dt>distance</dt><dd>a numeric vector of the probe distance</dd>
	<dt>truth</dt><dd>a binary vector represents the WGBS 
	methylation status (0-nDML, 1-DML)</dd>
  </dl>

BLCA: Single paired M-values of BLCA chr18 from TCGA

Description

Usage

Arguments

Format

Examples