getCellPopMatrix {MOCHA}

getCellPopMatrix

Description

getCellPopMatrix pulls out the SampleTileMatrix of tiles called in one given cell population.

Usage

getCellPopMatrix(
  SampleTileObj,
  cellPopulation,
  dropSamples = TRUE,
  NAtoZero = TRUE
)

Arguments

SampleTileObj

The output from getSampleTileMatrix, a SummarizedExperiment of pseudobulk intensities across all tiles & cell types.

cellPopulation

The cell population you want to pull out.

dropSamples

Boolean flag to determine whether to drop samples that were too small for peak calling.

NAtoZero

Boolean flag to determine whether to replace NAs with zero

Value

sampleTileMatrix a matrix of samples by called tiles for a given cell population.