segmentator: Define Differentially Methylated Regions

View source: R/segmentator.R

segmentatorR Documentation

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.