segmentator: Define Differentially Methylated Regions

In cgplab/ROCkerMeth: Receiver Operating Characteristic curves analyzer for DNA methylation data

Define Differentially Methylated Regions

Description

Given a set of methylation states produced by [meth_states_finder] and a set of methylation (beta) values differences between tumor and control samples, this function defines stretches of equal states (segments).

Usage

segmentator(
  tumor_beta_mean,
  control_beta_mean,
  meth_states,
  coordinates,
  max_dist
)

Arguments

tumor_beta_mean	A vector of average methylation (beta) values.
control_beta_mean	A vector of average methylation (beta) values.
meth_states	A vector of methylation states (1, 2, 3, NA).
coordinates	Ordered genomic positions of methylation sites
max_dist	Maximum distance between two contiguous sites in a DMR.

Value

A data.frame with information about DMRs

cgplab/ROCkerMeth documentation built on March 27, 2022, 9:57 p.m.