plotMASTThresholdGenes: MAST Identify adaptive thresholds

In singleCellTK: Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data

Description

Calculate and produce a list of thresholded counts (on natural scale), thresholds, bins, densities estimated on each bin, and the original data from thresholdSCRNACountMatrix

Usage

plotMASTThresholdGenes(
  inSCE,
  useAssay = "logcounts",
  isLogged = TRUE,
  check_sanity = TRUE
)

Arguments

inSCE	SingleCellExperiment object
useAssay	character, default "logcounts"
isLogged	Logical scalar. Whether the assay used for the analysis is logged. If not, will do a log(assay + 1) transformation. Default TRUE.
check_sanity	Logical scalar. Whether to perform MAST's sanity check to see if the counts are logged. Default TRUE

Value

Plot the thresholding onto the plotting region.

Examples

data("mouseBrainSubsetSCE")
plotMASTThresholdGenes(mouseBrainSubsetSCE)

singleCellTK documentation built on Nov. 8, 2020, 5:21 p.m.