SCENIC (version 1.1.2-01)

runSCENIC_4_aucell_binarize: 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)

Value

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

Details

See the detailed vignette explaining the internal steps.

Examples

# NOT RUN {
runSCENIC_4_aucell_binarize(scenicOptions)
# }