# Generated by roxygen2: do not edit by hand

export(GeneTonic)
export(GeneTonicList)
export(GeneTonic_list)
export(check_colors)
export(checkup_GeneTonic)
export(checkup_gtl)
export(cluster_markov)
export(create_jaccard_matrix)
export(create_kappa_matrix)
export(create_upsetdata)
export(describe_gtl)
export(deseqresult2df)
export(distill_enrichment)
export(enhance_table)
export(enrichment_map)
export(export_for_iSEE)
export(export_to_sif)
export(gene_plot)
export(geneinfo_2_html)
export(get_aggrscores)
export(get_expression_values)
export(ggs_backbone)
export(ggs_graph)
export(go_2_html)
export(gs_alluvial)
export(gs_dendro)
export(gs_fuzzyclustering)
export(gs_heatmap)
export(gs_horizon)
export(gs_mds)
export(gs_radar)
export(gs_sankey)
export(gs_scores)
export(gs_scoresheat)
export(gs_simplify)
export(gs_spider)
export(gs_summary_heat)
export(gs_summary_overview)
export(gs_summary_overview_pair)
export(gs_upset)
export(gs_volcano)
export(happy_hour)
export(map2color)
export(overlap_coefficient)
export(overlap_jaccard_index)
export(shake_davidResult)
export(shake_enrichResult)
export(shake_enrichrResult)
export(shake_fgseaResult)
export(shake_gprofilerResult)
export(shake_gsenrichResult)
export(shake_topGOtableResult)
export(signature_volcano)
export(styleColorBar_divergent)
export(summarize_ggs_hubgenes)
import(GO.db)
import(SummarizedExperiment)
import(ggplot2)
import(shiny, except = c(renderDataTable, dataTableOutput))
importFrom(AnnotationDbi,Definition)
importFrom(AnnotationDbi,GOID)
importFrom(AnnotationDbi,Ontology)
importFrom(AnnotationDbi,Secondary)
importFrom(AnnotationDbi,Synonym)
importFrom(AnnotationDbi,Term)
importFrom(ComplexHeatmap,Heatmap)
importFrom(ComplexHeatmap,HeatmapAnnotation)
importFrom(ComplexHeatmap,draw)
importFrom(ComplexUpset,intersection_matrix)
importFrom(ComplexUpset,intersection_size)
importFrom(ComplexUpset,upset)
importFrom(DESeq2,counts)
importFrom(DESeq2,estimateSizeFactors)
importFrom(DESeq2,normalizationFactors)
importFrom(DESeq2,sizeFactors)
importFrom(DESeq2,vst)
importFrom(DT,JS)
importFrom(DT,dataTableOutput)
importFrom(DT,datatable)
importFrom(DT,formatRound)
importFrom(DT,formatStyle)
importFrom(DT,renderDataTable)
importFrom(RColorBrewer,brewer.pal)
importFrom(S4Vectors,mcols)
importFrom(backbone,backbone.extract)
importFrom(backbone,fdsm)
importFrom(backbone,fixedrow)
importFrom(backbone,sdsm)
importFrom(bs4Dash,bs4Card)
importFrom(bs4Dash,bs4DashBody)
importFrom(bs4Dash,bs4DashControlbar)
importFrom(bs4Dash,bs4DashFooter)
importFrom(bs4Dash,bs4DashNavbar)
importFrom(bs4Dash,bs4DashPage)
importFrom(bs4Dash,bs4DashSidebar)
importFrom(bs4Dash,bs4InfoBox)
importFrom(bs4Dash,bs4InfoBoxOutput)
importFrom(bs4Dash,bs4SidebarMenu)
importFrom(bs4Dash,bs4SidebarMenuItem)
importFrom(bs4Dash,bs4TabCard)
importFrom(bs4Dash,bs4TabItem)
importFrom(bs4Dash,bs4TabItems)
importFrom(bs4Dash,bs4ValueBox)
importFrom(bs4Dash,bs4ValueBoxOutput)
importFrom(bs4Dash,renderbs4InfoBox)
importFrom(bs4Dash,renderbs4ValueBox)
importFrom(circlize,colorRamp2)
importFrom(colorspace,rainbow_hcl)
importFrom(colourpicker,colourInput)
importFrom(dendextend,branches_attr_by_clusters)
importFrom(dendextend,set)
importFrom(dplyr,"%>%")
importFrom(dplyr,arrange)
importFrom(dplyr,desc)
importFrom(dplyr,group_by)
importFrom(dplyr,mutate)
importFrom(dplyr,pull)
importFrom(dplyr,select)
importFrom(dplyr,slice)
importFrom(dynamicTreeCut,cutreeDynamic)
importFrom(expm,"%^%")
importFrom(ggforce,geom_sina)
importFrom(ggrepel,geom_label_repel)
importFrom(ggrepel,geom_text_repel)
importFrom(ggridges,geom_density_ridges)
importFrom(ggridges,position_points_jitter)
importFrom(grDevices,col2rgb)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,rgb)
importFrom(graphics,par)
importFrom(graphics,plot)
importFrom(grid,gpar)
importFrom(igraph,"%du%")
importFrom(igraph,"E<-")
importFrom(igraph,"V<-")
importFrom(igraph,E)
importFrom(igraph,V)
importFrom(igraph,add_edges)
importFrom(igraph,as_adjacency_matrix)
importFrom(igraph,as_incidence_matrix)
importFrom(igraph,degree)
importFrom(igraph,delete.edges)
importFrom(igraph,delete_vertices)
importFrom(igraph,get.edgelist)
importFrom(igraph,graph.data.frame)
importFrom(igraph,induced_subgraph)
importFrom(igraph,make_full_graph)
importFrom(igraph,permute.vertices)
importFrom(igraph,strength)
importFrom(igraph,vcount)
importFrom(matrixStats,rowSds)
importFrom(methods,is)
importFrom(plotly,add_trace)
importFrom(plotly,ggplotly)
importFrom(plotly,layout)
importFrom(plotly,plot_ly)
importFrom(plotly,plotlyOutput)
importFrom(plotly,renderPlotly)
importFrom(rintrojs,introjs)
importFrom(rintrojs,introjsUI)
importFrom(rlang,.data)
importFrom(rmarkdown,render)
importFrom(scales,alpha)
importFrom(scales,muted)
importFrom(shinyAce,aceEditor)
importFrom(shinyWidgets,dropdownButton)
importFrom(shinyWidgets,tooltipOptions)
importFrom(shinycssloaders,withSpinner)
importFrom(stats,as.dendrogram)
importFrom(stats,as.dist)
importFrom(stats,cmdscale)
importFrom(stats,dist)
importFrom(stats,hclust)
importFrom(stats,median)
importFrom(stats,na.omit)
importFrom(stats,order.dendrogram)
importFrom(stats,runif)
importFrom(stats,var)
importFrom(tidyr,pivot_longer)
importFrom(tidyr,separate_rows)
importFrom(tippy,tippy)
importFrom(tools,file_ext)
importFrom(tools,file_path_sans_ext)
importFrom(utils,browseURL)
importFrom(utils,citation)
importFrom(utils,data)
importFrom(utils,head)
importFrom(utils,read.delim)
importFrom(utils,sessionInfo)
importFrom(utils,write.table)
importFrom(viridis,viridis)
importFrom(visNetwork,renderVisNetwork)
importFrom(visNetwork,visExport)
importFrom(visNetwork,visIgraph)
importFrom(visNetwork,visNetworkOutput)
importFrom(visNetwork,visOptions)