runSCENIC_3_scoreCells: runSCENIC_3_scoreCells

In aertslab/SCENIC: SCENIC (Single Cell rEgulatory Network Inference and Clustering)

runSCENIC_3_scoreCells

Description

Step 3: AUCell (scoring the regulons on the individual cells)

Usage

runSCENIC_3_scoreCells(
  scenicOptions,
  exprMat,
  skipBinaryThresholds = FALSE,
  skipHeatmap = FALSE,
  skipTsne = FALSE
)

Arguments

scenicOptions	Fields used: TODO
exprMat	Expression matrix
skipBinaryThresholds	Whether to skip the automatic binarization step
skipHeatmap	Whether to plot the AUC heatmap
skipTsne	Whether to plot the t-SNE

Details

See the detailed vignette explaining the internal steps.

Value

The output is written in the folders 'int' and 'ouput'

Examples

runSCENIC_3_scoreCells(scenicOptions)

aertslab/SCENIC documentation built on April 7, 2024, 10 a.m.