CNV_Simulator: CNV_Simulator Function infers CNV profiles of cells in terms...

In LunFlaer/DTCFinder: Malignant cells finder

Description

CNV_Simulator Function infers CNV profiles of cells in terms of posterio probability based on a fitted two-component Gaussian Mixture Model over the log2(CPM/10+1) expression matrix

Usage

CNV_Simulator(
  ExprMat,
  minUMIs = 10,
  minCells = 1,
  minGenes = 100,
  repetitions = 8
)

Arguments

ExprMat	A genes X cells expression matrix of log2(CPM/10+1) scaled scRNA-seq counts
minUMIs	Minimal UMI counts for a gene to be kept over all cells (default = 10)
minCells	Minimal expressed cell number for a gene to be kept over all cells (default = 1)
minGenes	Minimal region size in terms of genes number within the region (default = 100)
repetitions	Loop number of fitting to a GMM to obtain an optimal Gaussian mixture model

Value

a matrix of posterior probabilities as CNV estimates

Examples

CNV_Simulator(data)

LunFlaer/DTCFinder documentation built on July 17, 2020, 4:26 a.m.