deconv_simple: Simple deconvolution function using W-NNLS

In meichendong/SCDC: Bulk RNA-seq deconvolution by scRNA-seq with multi-reference datasets

Simple deconvolution function using W-NNLS

Description

Deconvolution using pre-normalized count matrix and pre-calculated basis matrix.

Usage

deconv_simple(
  count.filter.norm,
  basis.norm,
  iter.max = 2000,
  nu = 1e-10,
  epsilon = 0.001,
  truep = NULL
)

Arguments

count.filter.norm	Normalized count matrix for bulk samples. Genes by samples.
basis.norm	Basis matrix calculated from single cell samples. Genes by cell-types.
iter.max	the maximum number of iteration in WNNLS
nu	a small constant to facilitate the calculation of variance
epsilon	a small constant number used for convergence criteria
truep	true cell-type proportions for bulk samples if known

Value

Estimated proportion-prop.est.mvw for bulk samples

meichendong/SCDC documentation built on Jan. 26, 2023, 5:08 p.m.