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NAMESPACE
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NAMESPACE
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# Generated by roxygen2: do not edit by hand
export(CalMTpercent)
export(Cosine_networkByGSEA)
export(DetectGeneIDtype)
export(GOboxplot)
export(GOcircleplot)
export(ID2Description)
export(QCfun)
export(RunGSEA)
export(RunSeurat)
export(Topterms_Topic)
export(circleplot)
export(cluster_topic_hmp)
export(clustercorplot)
export(clustercorplot_jaccard)
export(cosine_heatmap2)
export(cosine_hive)
export(cosine_network_cluster)
export(cosine_network_cluster2)
export(cosine_network_term)
export(cosineheatmap)
export(cosinehmp_cluster)
export(edge_bundling_GSEA)
export(embeddedplot)
export(gseaHeatmap)
export(hierarchyplot_tree)
export(hist_cluster_topic)
export(hist_topic_term)
export(lda.rep)
export(oversample_ref)
export(pathwayScatterplot)
export(pathway_unique_shared)
export(plot_sankey)
export(plotindex)
export(predictFun)
export(readData)
export(runLDA)
export(sankey_comparison)
export(scPalette)
export(scPalette2)
export(scPalette3)
export(simplifyEnrichmentplot)
export(topicNW1)
export(topicNW2)
export(topicNW3)
export(topicProb)
export(transfer_LDA)
export(umap_cluster)
export(visualize_in_shiny)
export(wordcloud_topic)
export(wordcloud_topic_3D)
import(Seurat)
import(ggplot2)
import(igraph)
importFrom(AnnotationHub,AnnotationHub)
importFrom(AnnotationHub,query)
importFrom(ComplexHeatmap,`%v%`)
importFrom(DOSE,gseDGN)
importFrom(DOSE,gseDO)
importFrom(DOSE,gseNCG)
importFrom(RColorBrewer,brewer.pal)
importFrom(Seurat,CreateSeuratObject)
importFrom(Seurat,FeatureScatter)
importFrom(Seurat,GetAssayData)
importFrom(Seurat,PercentageFeatureSet)
importFrom(Seurat,Read10X)
importFrom(Seurat,Read10X_h5)
importFrom(Seurat,VlnPlot)
importFrom(Seurat,as.Seurat)
importFrom(biomaRt,getBM)
importFrom(biomaRt,searchDatasets)
importFrom(biomaRt,useDataset)
importFrom(biomaRt,useMart)
importFrom(caret,train)
importFrom(caret,trainControl)
importFrom(circlize,chordDiagram)
importFrom(circlize,circlize)
importFrom(circlize,circos.clear)
importFrom(circlize,circos.par)
importFrom(circlize,circos.text)
importFrom(circlize,circos.trackPlotRegion)
importFrom(circlize,get.cell.meta.data)
importFrom(clusterProfiler,GSEA)
importFrom(clusterProfiler,bitr)
importFrom(clusterProfiler,gseGO)
importFrom(clusterProfiler,gseKEGG)
importFrom(clusterProfiler,read.gmt)
importFrom(clusterProfiler,search_kegg_organism)
importFrom(cowplot,draw_plot)
importFrom(cowplot,ggdraw)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,mutate)
importFrom(dplyr,n)
importFrom(dplyr,slice_max)
importFrom(dplyr,top_n)
importFrom(dplyr,ungroup)
importFrom(echarts4r,e_charts)
importFrom(echarts4r,e_graph)
importFrom(echarts4r,e_graph_edges)
importFrom(echarts4r,e_graph_nodes)
importFrom(echarts4r,e_labels)
importFrom(echarts4r,e_legend)
importFrom(echarts4r,e_title)
importFrom(echarts4r,e_toolbox)
importFrom(echarts4r,e_toolbox_feature)
importFrom(echarts4r,e_tooltip)
importFrom(foreach,`%do%`)
importFrom(foreach,foreach)
importFrom(ggraph,geom_conn_bundle)
importFrom(ggraph,geom_edge_hive)
importFrom(ggraph,geom_edge_link)
importFrom(ggraph,geom_node_point)
importFrom(ggraph,geom_node_text)
importFrom(ggraph,get_con)
importFrom(ggraph,ggraph)
importFrom(ggraph,guide_edge_colourbar)
importFrom(ggraph,scale_edge_color_distiller)
importFrom(ggraph,scale_edge_colour_manual)
importFrom(ggraph,scale_edge_width)
importFrom(ggraph,scale_edge_width_continuous)
importFrom(ggwordcloud,geom_text_wordcloud_area)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,dev.off)
importFrom(grDevices,hcl)
importFrom(grDevices,pdf)
importFrom(graphics,arrows)
importFrom(graphics,layout)
importFrom(graphics,par)
importFrom(graphics,plot)
importFrom(graphics,points)
importFrom(graphics,rect)
importFrom(graphics,text)
importFrom(igraph,graph_from_data_frame)
importFrom(magrittr,`%<>%`)
importFrom(magrittr,`%>%`)
importFrom(magrittr,set_colnames)
importFrom(modeltools,posterior)
importFrom(networkD3,sankeyNetwork)
importFrom(paletteer,paletteer_d)
importFrom(plyr,.)
importFrom(plyr,ddply)
importFrom(scatterpie,geom_scatterpie)
importFrom(stats,as.dendrogram)
importFrom(stats,cor)
importFrom(stats,cutree)
importFrom(stats,dist)
importFrom(stats,embed)
importFrom(stats,hclust)
importFrom(stats,median)
importFrom(stats,predict)
importFrom(stats,quantile)
importFrom(stats,reorder)
importFrom(stats,setNames)
importFrom(utils,combn)
importFrom(utils,install.packages)
importFrom(widyr,pairwise_similarity)