getAllClassMeansMatrix: Collect all the class means from allClassMeans object

In jsemple19/EMclassifieR: Classify DSMF data using the Expectation Maximisation algorithm

Collect all the class means from allClassMeans object

Description

AllClassMeans is a list of tables with the position in the list corresponding to the total number of classes used in clustering and the table giving the methylation frequency at different positions for each class and each replicate. This function collects all the class mean profiles for clustering into any k clusters in k_range, and returns a matrix with cluster-name-number x position

Usage

getAllClassMeansMatrix(
  allClassMeans,
  k_range = 4:8,
  xRange = c(-250, 250),
  name = ""
)

Arguments

allClassMeans	A list by number of classes of tables containing positions, fraction methylation, and class ID for replicate EM runs.
k_range	An vector of the range of total number of classes used in each clustering
xRange	A vector of the first and last coordinates of the region to plot (default is c(-250,250))
name	Name of data set that will be added to the start of the row names.

Value

A matrix of all the class mean profiles from the clustering into all the k clusters in k_range

jsemple19/EMclassifieR documentation built on Aug. 12, 2022, 2:57 p.m.