# Generated by roxygen2: do not edit by hand

export(TSENAT)
export(TSENATAnalysis)
export(TSENAT_config)
export(build_analysis)
export(calculate_assumptions)
export(calculate_concordance)
export(calculate_divergence)
export(calculate_diversity)
export(calculate_effect_sizes)
export(calculate_jeo)
export(calculate_jis)
export(calculate_m_estimator)
export(calculate_sait)
export(calculate_srh)
export(filter_analysis)
export(plot_concordance)
export(plot_divergence_distribution)
export(plot_divergence_spectrum)
export(plot_diversity_spectrum)
export(plot_diversity_violin_density)
export(plot_expression)
export(plot_jis_delta)
export(plot_sait)
export(results)
export(se)
exportClasses(TSENATAnalysis)
exportMethods('[')
exportMethods('metadata<-')
exportMethods(metadata)
import(grid)
import(methods)
import(pheatmap)
importFrom(Rcpp,sourceCpp)
importFrom(S4Vectors,"metadata<-")
importFrom(S4Vectors,DataFrame)
importFrom(S4Vectors,metadata)
importFrom(SummarizedExperiment,"rowData<-")
importFrom(SummarizedExperiment,SummarizedExperiment)
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,assayNames)
importFrom(SummarizedExperiment,assays)
importFrom(SummarizedExperiment,colData)
importFrom(SummarizedExperiment,rowData)
importFrom(cowplot,plot_grid)
importFrom(digest,digest)
importFrom(dplyr,"%>%")
importFrom(dplyr,arrange)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,mutate)
importFrom(dplyr,pull)
importFrom(dplyr,select)
importFrom(dplyr,summarise)
importFrom(ggplot2,aes)
importFrom(ggplot2,annotate)
importFrom(ggplot2,element_text)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_col)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_ribbon)
importFrom(ggplot2,geom_tile)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_color_brewer)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_fill_gradient2)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_shape_manual)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_minimal)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,dev.new)
importFrom(grDevices,dev.off)
importFrom(grDevices,png)
importFrom(memoise,cache_memory)
importFrom(memoise,forget)
importFrom(memoise,memoise)
importFrom(methods,is)
importFrom(rlang,.data)
importFrom(stats,IQR)
importFrom(stats,aggregate)
importFrom(stats,anova)
importFrom(stats,aov)
importFrom(stats,as.formula)
importFrom(stats,ave)
importFrom(stats,chisq.test)
importFrom(stats,coef)
importFrom(stats,cor)
importFrom(stats,fitted)
importFrom(stats,formula)
importFrom(stats,lm)
importFrom(stats,loess)
importFrom(stats,loess.control)
importFrom(stats,median)
importFrom(stats,model.frame)
importFrom(stats,model.matrix)
importFrom(stats,na.omit)
importFrom(stats,p.adjust)
importFrom(stats,pchisq)
importFrom(stats,pnorm)
importFrom(stats,pt)
importFrom(stats,qnorm)
importFrom(stats,quantile)
importFrom(stats,residuals)
importFrom(stats,rmultinom)
importFrom(stats,rpois)
importFrom(stats,sd)
importFrom(stats,setNames)
importFrom(stats,t.test)
importFrom(stats,var)
importFrom(stats,vcov)
importFrom(stats,weighted.mean)
importFrom(stats,wilcox.test)
importFrom(stats,xtabs)
importFrom(tidyr,pivot_longer)
importFrom(utils,capture.output)
importFrom(utils,head)
importFrom(utils,str)
importFrom(utils,write.table)
useDynLib(TSENAT, .registration = TRUE)
