# Generated by roxygen2: do not edit by hand

export(AddMetaData_RNA)
export(Aggregate_epiRegions)
export(Build_RNAObject)
export(CreateRNAObject)
export(Extract_epiData)
export(Integrate_MultiOmics)
export(PlotDimRed_Epi)
export(PlotDimRed_RNA)
export(PlotLandscape_Epi)
export(PlotOmicsMatrix)
export(PlotOmicsScatter)
export(PlotPseudo_RNA)
export(PlotQC_RNA)
export(PlotVolcano_Epi)
export(PlotVolcano_RNA)
export(ProcessQC_RNA)
export(QC_epiData)
export(Reduce_epiDims)
export(RunClustering_RNA)
export(RunDEA_RNA)
export(RunDimReduction_RNA)
export(RunPseudotime_RNA)
export(Run_Diffanalysis)
import(ggplot2)
importFrom(GenomicRanges,GRanges)
importFrom(IRanges,findOverlaps)
importFrom(Matrix,colSums)
importFrom(Matrix,rowMeans)
importFrom(Matrix,rowSums)
importFrom(Matrix,t)
importFrom(S4Vectors,queryHits)
importFrom(S4Vectors,subjectHits)
importFrom(data.table,":=")
importFrom(data.table,as.data.table)
importFrom(data.table,fread)
importFrom(data.table,setDT)
importFrom(dplyr,distinct)
importFrom(dplyr,filter)
importFrom(dplyr,first)
importFrom(dplyr,group_by)
importFrom(dplyr,inner_join)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,pull)
importFrom(dplyr,rename)
importFrom(dplyr,select)
importFrom(dplyr,summarise)
importFrom(dplyr,ungroup)
importFrom(ggplot2,aes)
importFrom(ggplot2,arrow)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_line)
importFrom(ggplot2,element_rect)
importFrom(ggplot2,element_text)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_jitter)
importFrom(ggplot2,geom_path)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_violin)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,guide_legend)
importFrom(ggplot2,guides)
importFrom(ggplot2,labs)
importFrom(ggplot2,margin)
importFrom(ggplot2,scale_alpha_manual)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_color_viridis_c)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_size_manual)
importFrom(ggplot2,stat_ellipse)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,theme_classic)
importFrom(ggplot2,theme_minimal)
importFrom(ggplot2,unit)
importFrom(ggpubr,stat_cor)
importFrom(ggrepel,geom_text_repel)
importFrom(grDevices,colorRampPalette)
importFrom(igraph,cluster_leiden)
importFrom(igraph,distances)
importFrom(igraph,graph_from_edgelist)
importFrom(igraph,simplify)
importFrom(magrittr,"%>%")
importFrom(methods,as)
importFrom(parallel,clusterEvalQ)
importFrom(parallel,makePSOCKcluster)
importFrom(parallel,stopCluster)
importFrom(patchwork,plot_annotation)
importFrom(patchwork,plot_layout)
importFrom(patchwork,wrap_plots)
importFrom(pbapply,pblapply)
importFrom(stats,as.dist)
importFrom(stats,cmdscale)
importFrom(stats,cor)
importFrom(stats,cutree)
importFrom(stats,dist)
importFrom(stats,fisher.test)
importFrom(stats,hclust)
importFrom(stats,p.adjust)
importFrom(stats,prcomp)
importFrom(stats,var)
importFrom(stats,wilcox.test)
importFrom(tidyr,pivot_longer)
importFrom(tidyselect,all_of)
importFrom(tools,toTitleCase)
importFrom(utils,head)
