dot-initializeMLEs: .initializeMLEs

In methylCC: Estimate the cell composition of whole blood in DNA methylation samples

Description

Helper functions to initialize MLEs in estimatecc().

Usage

.initializeMLEs(init_param_method, n, K, Ys, Zs, a0init, a1init, sig0init,
  sig1init, tauinit)

Arguments

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".
n	Number of samples
K	Number of cell types
Ys	observed methylation levels in samples provided by user of dimension R x n
Zs	Cell type specific regions of dimension R x K
a0init	Default NULL. Initial mean methylation level in unmethylated regions
a1init	Default NULL. Initial mean methylation level in methylated regions
sig0init	Default NULL. Initial var methylation level in unmethylated regions
sig1init	Default NULL. Initial var methylation level in methylated regions
tauinit	Default NULL. Initial var for measurement error

Value

A list of MLE estimates to be used in estimatecc().

methylCC documentation built on Nov. 8, 2020, 7:35 p.m.