# Generated by roxygen2: do not edit by hand

export(aggregateRankPlot)
export(allBenchmarkPlots)
export(allBenchmarkResults)
export(benchmarkPlots)
export(corrPlots)
export(corrSummary)
export(efficiencyBenchmark)
export(geneSetRankPlots)
export(mdsPlots)
export(memoryPlot)
export(metricRankPlots)
export(predJaccardPlots)
export(ratioPlot)
export(runAUCell)
export(runAddModuleScore)
export(runBenchmark)
export(runBenchmarkShuffle)
export(runGSAMethods)
export(runGSVA)
export(runJASMINE)
export(runMDT)
export(runMLM)
export(runMethodShuffle)
export(runORA)
export(runPLAGE)
export(runPagoda2)
export(runSiPSiC)
export(runSingscore)
export(runUCell)
export(runUDT)
export(runVAM)
export(runZscore)
export(runssGSEA)
export(scorePlot)
export(supportedMethods)
export(timePlot)
importFrom(CSOA,attachCellScores)
importFrom(CSOA,runCSOA)
importFrom(GSVA,gsva)
importFrom(GSVA,gsvaParam)
importFrom(GSVA,plageParam)
importFrom(GSVA,zscoreParam)
importFrom(MLmetrics,AUC)
importFrom(MLmetrics,LogLoss)
importFrom(MLmetrics,PRAUC)
importFrom(Matrix,colMeans)
importFrom(Matrix,rowMeans)
importFrom(Matrix,rowSums)
importFrom(Matrix,t)
importFrom(SiPSiC,getPathwayScores)
importFrom(VAM,vam)
importFrom(abdiv,euclidean)
importFrom(decoupleR,run_mdt)
importFrom(decoupleR,run_mlm)
importFrom(decoupleR,run_ora)
importFrom(decoupleR,run_udt)
importFrom(dplyr,count)
importFrom(escape,escape.matrix)
importFrom(fabR,silently_run)
importFrom(ggplot2,aes)
importFrom(ggplot2,cut_number)
importFrom(ggplot2,element_text)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggtitle)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_minimal)
importFrom(ggrepel,geom_text_repel)
importFrom(hammers,centerOfMass)
importFrom(hammers,checkGenes)
importFrom(hammers,computeSilhouette)
importFrom(hammers,normalizeSilhouette)
importFrom(hammers,safeMessage)
importFrom(hammers,safeMinmax)
importFrom(henna,classPlot)
importFrom(henna,correlationPlot)
importFrom(henna,densityPlot)
importFrom(henna,rankPlot)
importFrom(henna,rankSummary)
importFrom(henna,tilePlot)
importFrom(jaccard,jaccard)
importFrom(lsa,cosine)
importFrom(methods,is)
importFrom(mltools,mcc)
importFrom(mltools,replace_na)
importFrom(pagoda2,score.cells.puram)
importFrom(paletteer,paletteer_c)
importFrom(reshape2,melt)
importFrom(rlang,.data)
importFrom(scLang,"scCol<-")
importFrom(scLang,metadataDF)
importFrom(scLang,metadataNames)
importFrom(scLang,scCol)
importFrom(scLang,scExpMat)
importFrom(scLang,scPCAMat)
importFrom(singscore,rankGenes)
importFrom(singscore,simpleScore)
importFrom(stats,cmdscale)
importFrom(stats,cor)
importFrom(stats,dist)
importFrom(stats,rnorm)
importFrom(stats,setNames)
importFrom(stringr,str_remove)
importFrom(stringr,str_replace)
importFrom(stringr,str_split)
importFrom(stringr,str_sub)
importFrom(stringr,str_to_title)
importFrom(withr,with_seed)
