.preprocess_estimatecc {methylCC}R Documentation

.preprocess_estimatecc

Description

This function preprocesses the data before the estimatecc() function

Usage

.preprocess_estimatecc(object, verbose = TRUE,
  init_param_method = "random",
  celltype_specific_dmrs = celltype_specific_dmrs)

Arguments

object

an object can be a RGChannelSet, GenomicMethylSet or BSseq object

verbose

TRUE/FALSE argument specifying if verbose messages should be returned or not. Default is TRUE.

init_param_method

method to initialize parameter estimates. Choose between "random" (randomly sample) or "known_regions" (uses unmethyalted and methylated regions that were identified based on Reinus et al. (2012) cell sorted data.). Defaults to "random".

celltype_specific_dmrs

cell type specific differentially methylated regions (DMRs).

Value

A list of object to be used in estimatecc


[Package methylCC version 1.8.0 Index]