SCENIC (version 1.1.2-01)

plotTsne_AUCellApp: plotTsne_AUCellApp

Description

Creates the AUCell shiny app to visualize the regulon activities on the t-SNE

Usage

plotTsne_AUCellApp(scenicOptions, exprMat, tSNE_fileName = NULL,
  skipDuplicatedExtended = TRUE)

Arguments

scenicOptions

Fields used: aucell_regulonAUC, aucell_thresholds, cellInfo, and default tSNE

exprMat

Expression matrix

tSNE_fileName

tSNE file name. If null, the default t-SNE is used.

skipDuplicatedExtended

Skip extended regulons if there is a high-confidence regulon for the same TF

Value

Invisible: aucellApp

Examples

# NOT RUN {
logMat <- exprMat # Better if it is logged/normalized
aucellApp <- plotTsne_AUCellApp(scenicOptions, logMat)
savedSelections <- shiny::runApp(aucellApp)
# }