Generates a single simulated dataset, bootstrapping from the input counts matrix.

Source: R/DownsampleMatrix.R

Generates a single simulated dataset, bootstrapping from the input counts matrix.

generateSimulatedData(totalReads, cells, originalData, realLabels)

Arguments

totalReads

Numeric. The total number of reads in the simulated dataset, to be split between all simulated cells.

cells

Numeric. The number of virtual cells to simulate.

originalData

Matrix. The original raw read count matrix. When used within the Shiny app, this will be assay(SCEsetObject, "counts").

realLabels

Factor. The condition labels for differential expression. If only two factors present, will default to t-test. If multiple factors, will default to ANOVA.

Value

A simulated counts matrix, the first row of which contains the 'true' labels for each virtual cell.

Examples

data("mouseBrainSubsetSCE")
res <- generateSimulatedData(
         totalReads = 1000, cells=10,
         originalData = assay(mouseBrainSubsetSCE, "counts"),
         realLabels = colData(mouseBrainSubsetSCE)[, "level1class"])