NAMESPACE

# Generated by roxygen2: do not edit by hand

S3method(print,FlowSOM)
export("%>%")
export(AddAnnotation)
export(AddBackground)
export(AddLabels)
export(AddMST)
export(AddNodes)
export(AddPies)
export(AddStars)
export(AddStarsPies)
export(AggregateFlowFrames)
export(BuildMST)
export(BuildSOM)
export(CountGroups)
export(FMeasure)
export(FlowSOM)
export(FlowSOMSubset)
export(FlowSOM_colors)
export(FlowSOMmary)
export(GetCVs)
export(GetChannels)
export(GetClusterCVs)
export(GetClusterMFIs)
export(GetClusterPercentagesPositive)
export(GetClusters)
export(GetCounts)
export(GetFeatures)
export(GetFlowJoLabels)
export(GetMFIs)
export(GetMarkers)
export(GetMetaclusterCVs)
export(GetMetaclusterMFIs)
export(GetMetaclusterPercentagesPositive)
export(GetMetaclusters)
export(GetPercentages)
export(GroupStats)
export(Initialize_KWSP)
export(Initialize_PCA)
export(ManualVector)
export(MetaClustering)
export(MetaclusterCVs)
export(MetaclusterMFIs)
export(NClusters)
export(NMetaclusters)
export(NewData)
export(ParseNodeSize)
export(Plot2DScatters)
export(PlotCenters)
export(PlotClusters2D)
export(PlotDimRed)
export(PlotFileScatters)
export(PlotFlowSOM)
export(PlotGroups)
export(PlotLabels)
export(PlotManualBars)
export(PlotMarker)
export(PlotNode)
export(PlotNumbers)
export(PlotOutliers)
export(PlotOverview2D)
export(PlotPies)
export(PlotSD)
export(PlotStarLegend)
export(PlotStars)
export(PlotVariable)
export(Purity)
export(QueryMultiple)
export(QueryStarPlot)
export(ReadInput)
export(SOM)
export(SaveClustersToFCS)
export(TestOutliers)
export(UpdateFlowSOM)
export(UpdateMetaclusters)
export(UpdateNodeSize)
export(get_channels)
export(get_markers)
export(metaClustering_consensus)
export(query_multiple)
import(ggplot2)
importFrom(BiocGenerics,colnames)
importFrom(ConsensusClusterPlus,ConsensusClusterPlus)
importFrom(Rtsne,Rtsne)
importFrom(XML,xmlParse)
importFrom(XML,xmlToList)
importFrom(colorRamps,matlab.like2)
importFrom(dplyr,arrange)
importFrom(dplyr,count)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,mutate)
importFrom(dplyr,pull)
importFrom(dplyr,select)
importFrom(dplyr,slice)
importFrom(dplyr,summarise)
importFrom(dplyr,summarise_all)
importFrom(dplyr,tibble)
importFrom(flowCore,'exprs<-')
importFrom(flowCore,colnames)
importFrom(flowCore,compensate)
importFrom(flowCore,exprs)
importFrom(flowCore,fr_append_cols)
importFrom(flowCore,fsApply)
importFrom(flowCore,keyword)
importFrom(flowCore,logicleTransform)
importFrom(flowCore,markernames)
importFrom(flowCore,read.FCS)
importFrom(flowCore,sampleNames)
importFrom(flowCore,transform)
importFrom(flowCore,transformList)
importFrom(flowCore,write.FCS)
importFrom(ggforce,geom_arc_bar)
importFrom(ggforce,geom_circle)
importFrom(ggnewscale,new_scale)
importFrom(ggplot2,coord_fixed)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggplot_build)
importFrom(ggplot2,ggtitle)
importFrom(ggplot2,theme_void)
importFrom(ggpubr,annotate_figure)
importFrom(ggpubr,get_legend)
importFrom(ggpubr,ggarrange)
importFrom(ggpubr,ggtexttable)
importFrom(ggpubr,text_grob)
importFrom(ggpubr,ttheme)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,dev.off)
importFrom(grDevices,hcl)
importFrom(grDevices,pdf)
importFrom(grDevices,png)
importFrom(graphics,lines)
importFrom(igraph,'V<-')
importFrom(igraph,E)
importFrom(igraph,V)
importFrom(igraph,add.vertex.shape)
importFrom(igraph,as_edgelist)
importFrom(igraph,get.edges)
importFrom(igraph,graph.adjacency)
importFrom(igraph,igraph.shape.noclip)
importFrom(igraph,layout.kamada.kawai)
importFrom(igraph,minimum.spanning.tree)
importFrom(igraph,plot.igraph)
importFrom(igraph,shortest.paths)
importFrom(magrittr,"%>%")
importFrom(methods,is)
importFrom(rlang,.data)
importFrom(stats,dist)
importFrom(stats,median)
importFrom(stats,p.adjust)
importFrom(stats,prcomp)
importFrom(stats,quantile)
importFrom(stats,rnorm)
importFrom(stats,runif)
importFrom(stats,wilcox.test)
importFrom(tidyr,pivot_longer)
importFrom(utils,capture.output)
importFrom(utils,packageVersion)
useDynLib(FlowSOM, .registration = TRUE)