deconSeq: Deconvolution using w-RLM method.

In lihuamei/LinDeconSeq: Cell Type Deconvolution using gene expression data for bulk samples.

Deconvolution using w-RLM method.

Description

Cell type deoovolution for bulk samples based on weighted RLM method.

Usage

deconSeq(
  bulks,
  signature,
  weight = TRUE,
  intercept = TRUE,
  scale = FALSE,
  QN = FALSE,
  verbose = TRUE
)

Arguments

bulks	bulk gene expression (row = Genes, column = Samples).
signature	Signature matrix, i.e. cell type-specific gene expression matrice of cell types.
weight	Weight gene or not, default: TRUE.
intercept	Add intercept when using robust linear regression, default: TRUE.
scale	Scale bulk gene expression data or not, default: FALSE.
QN	Quantile normalize bulk expression profile or not, default: FALSE
verbose	logical, to print the detailed information for each iteration.

Value

A data.frame of fractions for bulk samples.

lihuamei/LinDeconSeq documentation built on Nov. 29, 2024, 2:59 p.m.