# Generated by roxygen2: do not edit by hand

export(consensus_matrix)
export(get_de_genes)
export(get_marker_genes)
export(get_outl_cells)
export(get_processed_dataset)
export(norm_laplacian)
export(reindex_clusters)
export(sc3)
export(sc3_calc_biology)
export(sc3_calc_consens)
export(sc3_calc_dists)
export(sc3_calc_transfs)
export(sc3_estimate_k)
export(sc3_export_results_xls)
export(sc3_interactive)
export(sc3_kmeans)
export(sc3_plot_cluster_stability)
export(sc3_plot_consensus)
export(sc3_plot_de_genes)
export(sc3_plot_expression)
export(sc3_plot_markers)
export(sc3_plot_silhouette)
export(sc3_prepare)
export(sc3_run_svm)
import(Rcpp)
import(cluster)
importFrom(BiocGenerics,counts)
importFrom(ROCR,performance)
importFrom(ROCR,prediction)
importFrom(Rcpp,sourceCpp)
importFrom(S4Vectors,"metadata<-")
importFrom(S4Vectors,metadata)
importFrom(SingleCellExperiment,logcounts)
importFrom(SummarizedExperiment,"colData<-")
importFrom(SummarizedExperiment,"rowData<-")
importFrom(SummarizedExperiment,assayNames)
importFrom(SummarizedExperiment,colData)
importFrom(SummarizedExperiment,rowData)
importFrom(WriteXLS,WriteXLS)
importFrom(doParallel,registerDoParallel)
importFrom(doRNG,"%dorng%")
importFrom(e1071,svm)
importFrom(foreach,"%dopar%")
importFrom(foreach,foreach)
importFrom(ggplot2,aes)
importFrom(ggplot2,geom_bar)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,labs)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,ylim)
importFrom(graphics,plot)
importFrom(methods,as)
importFrom(methods,new)
importFrom(parallel,detectCores)
importFrom(parallel,makeCluster)
importFrom(parallel,stopCluster)
importFrom(pheatmap,pheatmap)
importFrom(robustbase,covMcd)
importFrom(rrcov,PcaHubert)
importFrom(shiny,HTML)
importFrom(shiny,actionButton)
importFrom(shiny,animationOptions)
importFrom(shiny,checkboxGroupInput)
importFrom(shiny,column)
importFrom(shiny,conditionalPanel)
importFrom(shiny,div)
importFrom(shiny,downloadButton)
importFrom(shiny,downloadHandler)
importFrom(shiny,downloadLink)
importFrom(shiny,eventReactive)
importFrom(shiny,fluidPage)
importFrom(shiny,fluidRow)
importFrom(shiny,h4)
importFrom(shiny,headerPanel)
importFrom(shiny,htmlOutput)
importFrom(shiny,need)
importFrom(shiny,observe)
importFrom(shiny,observeEvent)
importFrom(shiny,outputOptions)
importFrom(shiny,p)
importFrom(shiny,plotOutput)
importFrom(shiny,radioButtons)
importFrom(shiny,reactive)
importFrom(shiny,reactiveValues)
importFrom(shiny,renderPlot)
importFrom(shiny,renderUI)
importFrom(shiny,selectInput)
importFrom(shiny,shinyApp)
importFrom(shiny,sliderInput)
importFrom(shiny,stopApp)
importFrom(shiny,tabPanel)
importFrom(shiny,tabsetPanel)
importFrom(shiny,tags)
importFrom(shiny,uiOutput)
importFrom(shiny,updateSelectInput)
importFrom(shiny,validate)
importFrom(shiny,wellPanel)
importFrom(shiny,withProgress)
importFrom(stats,aggregate)
importFrom(stats,as.dist)
importFrom(stats,cmdscale)
importFrom(stats,cor)
importFrom(stats,cutree)
importFrom(stats,dist)
importFrom(stats,hclust)
importFrom(stats,kmeans)
importFrom(stats,kruskal.test)
importFrom(stats,median)
importFrom(stats,p.adjust)
importFrom(stats,prcomp)
importFrom(stats,predict)
importFrom(stats,qchisq)
importFrom(stats,wilcox.test)
importFrom(utils,capture.output)
importFrom(utils,head)
importFrom(utils,setTxtProgressBar)
importFrom(utils,txtProgressBar)
useDynLib(SC3)
