# Generated by roxygen2: do not edit by hand

export("burnin<-")
export("dfr<-")
export("hyperParams<-")
export("iter<-")
export("k<-")
export("mapping<-")
export("marginal_lik<-")
export("mcmcParams<-")
export("modes<-")
export("nStarts<-")
export("sigma<-")
export("theta<-")
export("thin<-")
export()
export(CopyNumberModel)
export(Hyperparameters)
export(HyperparametersMultiBatch)
export(HyperparametersSingleBatch)
export(HyperparametersTrios)
export(MB)
export(MBP)
export(McmcParams)
export(MultiBatchCopyNumber)
export(MultiBatchCopyNumberPooled)
export(MultiBatchModel2)
export(SB)
export(SBP)
export(SingleBatchCopyNumber)
export(SingleBatchModel2)
export(SingleBatchPooled)
export(TBM)
export(TrioBatchModel)
export(bafLikelihood)
export(batch)
export(bayesFactor)
export(bic)
export(burnin)
export(chains)
export(chromosome)
export(collapseBatch)
export(consensusCNP)
export(copyNumber)
export(dfr)
export(downSample)
export(eta.0)
export(findSurrogates)
export(ggChains)
export(ggMixture)
export(gibbs)
export(hpList)
export(hyperParams)
export(iter)
export(k)
export(label_switch)
export(logBayesFactor)
export(logPrior)
export(log_lik)
export(m2.0)
export(mapCnProbability)
export(mapCopyNumber)
export(mapParams)
export(map_z)
export(mapping)
export(marginalLik)
export(marginalLikelihood)
export(marginal_lik)
export(mcmcParams)
export(mlParams)
export(modes)
export(mu)
export(muMean)
export(muc)
export(nStarts)
export(nu.0)
export(numberObs)
export(oned)
export(orderModels)
export(pic)
export(posteriorPredictive)
export(posteriorSimulation)
export(posterior_cases)
export(pp)
export(probCopyNumber)
export(probz)
export(probzpar)
export(qInverseTau2)
export(saveBatch)
export(sigma)
export(sigma2)
export(sigma2.0)
export(sigmac)
export(simulateBatchData)
export(simulateData)
export(tau)
export(tau2)
export(tauMean)
export(tauc)
export(theta)
export(thin)
export(tileMedians)
export(tileSummaries)
export(triodata_lrr)
export(upSample2)
export(y)
export(z)
export(zFreq)
export(zFreqPar)
exportClasses(DensityBatchModel)
exportClasses(DensityModel)
exportClasses(MixtureModel)
exportClasses(MultiBatch)
exportClasses(MultiBatchCopyNumber)
exportClasses(MultiBatchCopyNumberPooled)
exportClasses(MultiBatchModel)
exportClasses(SingleBatchCopyNumber)
exportClasses(SingleBatchModel)
exportMethods(findSurrogates)
exportMethods(ggChains)
exportMethods(ggMixture)
exportMethods(modelName)
exportMethods(p)
import(GenomicRanges)
import(IRanges)
import(S4Vectors)
import(ggplot2)
import(methods)
import(tibble)
importFrom(BiocGenerics,unlist)
importFrom(GenomeInfoDb,"seqinfo<-")
importFrom(GenomeInfoDb,"seqlevels<-")
importFrom(GenomeInfoDb,seqinfo)
importFrom(GenomeInfoDb,seqlevels)
importFrom(GenomeInfoDb,seqnames)
importFrom(RColorBrewer,brewer.pal)
importFrom(Rcpp,evalCpp)
importFrom(coda,as.mcmc.list)
importFrom(coda,effectiveSize)
importFrom(coda,gelman.diag)
importFrom(coda,mcmc)
importFrom(coda,mcmc.list)
importFrom(combinat,permn)
importFrom(data.table,frank)
importFrom(data.table,setDT)
importFrom(data.table,tstrsplit)
importFrom(dplyr,arrange)
importFrom(dplyr,bind_rows)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,n)
importFrom(dplyr,select)
importFrom(dplyr,summarize)
importFrom(dplyr,ungroup)
importFrom(graphics,lines)
importFrom(graphics,par)
importFrom(gtools,ddirichlet)
importFrom(gtools,permutations)
importFrom(gtools,rdirichlet)
importFrom(gtools,smartbind)
importFrom(magrittr,"%>%")
importFrom(magrittr,set_colnames)
importFrom(matrixStats,colMaxs)
importFrom(matrixStats,colMedians)
importFrom(matrixStats,colSds)
importFrom(matrixStats,colVars)
importFrom(matrixStats,rowProds)
importFrom(mclust,Mclust)
importFrom(mclust,mclustBIC)
importFrom(purrr,map)
importFrom(purrr,map2)
importFrom(purrr,map_chr)
importFrom(purrr,map_dbl)
importFrom(purrr,map_lgl)
importFrom(reshape2,melt)
importFrom(scales,rescale)
importFrom(stats,dbeta)
importFrom(stats,df)
importFrom(stats,dgamma)
importFrom(stats,dnorm)
importFrom(stats,kmeans)
importFrom(stats,ks.test)
importFrom(stats,plot.ts)
importFrom(stats,qgamma)
importFrom(stats,qnorm)
importFrom(stats,rbeta)
importFrom(stats,rchisq)
importFrom(stats,rgamma)
importFrom(stats,rgeom)
importFrom(stats,rnorm)
importFrom(stats,rpois)
importFrom(stats,runif)
importFrom(stats,setNames)
importFrom(tidyr,gather)
importFrom(tidyr,spread)
importFrom(utils,capture.output)
importMethodsFrom(SummarizedExperiment,"assays<-")
importMethodsFrom(SummarizedExperiment,SummarizedExperiment)
importMethodsFrom(SummarizedExperiment,assays)
useDynLib(CNPBayes)
