NAMESPACE

# Generated by roxygen2: do not edit by hand

export(boxM)
export(boxM_fast)
export(boxM_permute)
export(collapseClusters)
export(combineResults)
export(corSubsetPairs)
export(corrMatrix.test)
export(countClusters)
export(createClusters)
export(createCorrelationMatrix)
export(delaneau.score)
export(delaneau.test)
export(evalDiffCorr)
export(evaluateCorrDecay)
export(extractCorrelationScores)
export(filterClusters)
export(getClusterNames)
export(getClusterRanges)
export(getFeaturesInCluster)
export(getFeaturesInClusterList)
export(getPeakDistances)
export(getSubset)
export(get_exon_coords)
export(jaccard)
export(plotClusterSegments)
export(plotCompareCorr)
export(plotCorrDecay)
export(plotCorrTriangle)
export(plotDecorate)
export(plotDensityPoints)
export(plotEnsGenes)
export(plotScatterPairs)
export(retainClusters)
export(runOrderedClustering)
export(runOrderedClusteringGenome)
export(runPermutedData)
export(scoreClusters)
export(sle.score)
export(sle.test)
export(whichCluster)
exportClasses(epiclust)
exportClasses(epiclustDiscreteList)
exportClasses(epiclustDiscreteListContain)
exportClasses(epiclustList)
exportClasses(sLEDresults)
exportMethods("[")
exportMethods(countClusters)
exportMethods(evalDiffCorr)
exportMethods(getSubset)
exportMethods(summary)
import(Biobase)
import(BiocParallel)
import(GenomeInfoDb)
import(GenomicRanges)
import(Matrix)
import(RcppArmadillo)
import(adjclust)
import(foreach)
import(ggplot2)
import(grid)
import(iterators)
import(limma)
import(methods)
import(rtracklayer)
import(sLED)
import(vegan)
importFrom(BiocParallel,SerialParam)
importFrom(BiocParallel,bplapply)
importFrom(ClustGeo,hclustgeo)
importFrom(GGally,ggmatrix)
importFrom(GenomicFeatures,exonsByOverlaps)
importFrom(GenomicRanges,GRanges)
importFrom(GenomicRanges,findOverlaps)
importFrom(GenomicRanges,seqnames)
importFrom(IRanges,IRanges)
importFrom(MASS,kde2d)
importFrom(Matrix,sparseMatrix)
importFrom(Rcpp,evalCpp)
importFrom(adjclust,adjClust)
importFrom(adjclust,correct)
importFrom(cowplot,draw_grob)
importFrom(cowplot,ggdraw)
importFrom(data.table,data.table)
importFrom(ggdendro,ggdendrogram)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,dev.off)
importFrom(grDevices,pdf)
importFrom(grDevices,rainbow)
importFrom(grDevices,rgb)
importFrom(heplots,boxM)
importFrom(labeling,extended)
importFrom(methods,is)
importFrom(methods,new)
importFrom(progress,progress_bar)
importFrom(psych,cortest.jennrich)
importFrom(psych,cortest.mat)
importFrom(psych,cortest.normal)
importFrom(reshape2,melt)
importFrom(rlist,list.reverse)
importFrom(sLED,Cai.max.test)
importFrom(sLED,Chang.maxBoot.test)
importFrom(sLED,LC.U.test)
importFrom(sLED,Schott.Frob.test)
importFrom(sLED,WL.randProj.test)
importFrom(stats,aggregate)
importFrom(stats,as.dist)
importFrom(stats,as.hclust)
importFrom(stats,complete.cases)
importFrom(stats,cor)
importFrom(stats,cor.test)
importFrom(stats,cutree)
importFrom(stats,dchisq)
importFrom(stats,dist)
importFrom(stats,kruskal.test)
importFrom(stats,median)
importFrom(stats,optimize)
importFrom(stats,p.adjust)
importFrom(stats,pchisq)
importFrom(stats,quantile)
importFrom(stats,wilcox.test)
importFrom(utils,combn)
importFrom(utils,object.size)
useDynLib(decorate, .registration=TRUE)