runSCENIC_4_aucell_binarize: runSCENIC_4_aucell_binarize

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

runSCENIC_4_aucell_binarize

Description

Step 4: Binarize the AUC (and, optional: re-cluster)

Usage

runSCENIC_4_aucell_binarize(
  scenicOptions,
  skipBoxplot = FALSE,
  skipHeatmaps = FALSE,
  skipTsne = FALSE,
  exprMat = NULL
)

Arguments

scenicOptions	Fields used: TODO
skipBoxplot	Whether to plot the boxplots
skipHeatmaps	Whether to plot the Binary heatmaps
skipTsne	Whether to calculate the binary t-SNE (and optionally, generate a HTML preview)
exprMat	If !skipTsne, the expression matrix can be provided to plot the TF expression on the t-SNE (plotTsne_AUCellHtml)

Details

See the detailed vignette explaining the internal steps.

Value

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

Examples

runSCENIC_4_aucell_binarize(scenicOptions)

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