deriveWeights: Compute gene weights

In SpatialDecon: Deconvolution of mixed cells from spatial and/or bulk gene expression data

Description

Compute gene weights from pre-defined biological noise estimates and from raw count/ error-model-defined technical noise estimates

Usage

deriveWeights(
  norm,
  raw = NULL,
  error.model = "dsp",
  weight.by.TIL.resid.sd = FALSE
)

Arguments

norm	Matrix of data used in decon. Used to define the gene list and the shape of the output "wts" matrix.
raw	Matrix of raw data. If provided, used to define technical noise
error.model	Which error model to use. Defaults to "dsp"
weight.by.TIL.resid.sd	If TRUE, then genes are weighted in part based on their biological variability as estimated by their residual SD from decon performed on TCGA.

Value

A matrix of weights, in the same dimension as norm

SpatialDecon documentation built on Nov. 8, 2020, 6 p.m.