| BatchModel-class |
Man page
|
| BatchModelExample |
Man page
|
| CNPBayes |
Man page
|
| CNPBayes-package |
Man page
|
| CopyNumberModel |
Man page
|
| CopyNumberModel,MultiBatchModel-method |
Man page
|
| CopyNumberModel,MultiBatchPooled-method |
Man page
|
| CopyNumberModel,SingleBatchModel-method |
Man page
|
| DensityBatchModel-class |
Man page
|
| DensityModel-class |
Man page
|
| Hyperparameters |
Man page
|
| Hyperparameters-class |
Man page
|
| HyperparametersBatch-class |
Man page
|
| HyperparametersMarginal-class |
Man page
|
| HyperparametersMultiBatch |
Man page
|
| HyperparametersMultiBatch-class |
Man page
|
| HyperparametersSingleBatch |
Man page
|
| HyperparametersSingleBatch-class |
Man page
|
| HyperparametersTrios |
Man page
|
| HyperparametersTrios-class |
Man page
|
| MB |
Man page
|
| MBP |
Man page
|
| MarginalModel-class |
Man page
|
| MarginalModelExample |
Man page
|
| McmcChains-class |
Man page
|
| McmcParams |
Man page
|
| McmcParams-class |
Man page
|
| MixtureModel-class |
Man page
|
| MultiBatch-class |
Man page
|
| MultiBatchCopyNumber |
Man page
|
| MultiBatchCopyNumber-class |
Man page
|
| MultiBatchCopyNumberPooled |
Man page
|
| MultiBatchCopyNumberPooled-class |
Man page
|
| MultiBatchModel-class |
Man page
|
| MultiBatchModel2 |
Man page
|
| MultiBatchModelExample |
Man page
|
| MultiBatchPooledExample |
Man page
|
| SB |
Man page
|
| SBP |
Man page
|
| SingleBatchCopyNumber |
Man page
|
| SingleBatchCopyNumber-class |
Man page
|
| SingleBatchModel-class |
Man page
|
| SingleBatchModel2 |
Man page
|
| SingleBatchModelExample |
Man page
|
| SingleBatchPooled |
Man page
|
| TrioBatchModel |
Man page
|
| [,McmcChains,ANY,ANY,ANY-method |
Man page
|
| [,McmcChains,ANY-method |
Man page
|
| [,McmcChains-method |
Man page
|
| [,McmcChainsTrios,ANY,ANY,ANY-method |
Man page
|
| [,McmcChainsTrios,ANY-method |
Man page
|
| [,McmcChainsTrios-method |
Man page
|
| [,MultiBatchModel,ANY,ANY,ANY-method |
Man page
|
| [,MultiBatchModel,ANY,ANY-method |
Man page
|
| [,MultiBatchModel,ANY-method |
Man page
|
| [,MultiBatchModel-method |
Man page
|
| bafLikelihood |
Man page
|
| batch |
Man page
|
| batch,MixtureModel-method |
Man page
|
| bayesFactor |
Man page
|
| bic |
Man page
|
| bic,MultiBatchModel-method |
Man page
|
| burnin |
Man page
|
| burnin,McmcParams-method |
Man page
|
| burnin,MixtureModel-method |
Man page
|
| burnin<- |
Man page
|
| burnin<-,McmcParams,ANY-method |
Man page
|
| burnin<-,McmcParams-method |
Man page
|
| burnin<-,MixtureModel,ANY-method |
Man page
|
| burnin<-,MixtureModel-method |
Man page
|
| chains |
Man page
|
| chains,MixtureModel-method |
Man page
|
| chromosome |
Man page
|
| chromosome,GenomicRanges-method |
Man page
|
| collapseBatch |
Man page
|
| collapseBatch,MultiBatchModel-method |
Man page
|
| collapseBatch,SummarizedExperiment-method |
Man page
|
| collapseBatch,numeric-method |
Man page
|
| consensusCNP |
Man page
|
| copyNumber |
Man page
|
| copyNumber,MultiBatchCopyNumber-method |
Man page
|
| copyNumber,MultiBatchCopyNumberPooled-method |
Man page
|
| dfr |
Man page
|
| dfr,Hyperparameters-method |
Man page
|
| dfr,MixtureModel,numeric-method |
Man page
|
| dfr,MixtureModel-method |
Man page
|
| dfr<- |
Man page
|
| dfr<-,Hyperparameters,numeric-method |
Man page
|
| dfr<-,MixtureModel,numeric-method |
Man page
|
| downSample |
Man page
|
| eta.0 |
Man page
|
| eta.0,Hyperparameters-method |
Man page
|
| eta.0,MixtureModel-method |
Man page
|
| extract |
Man page
|
| findSurrogates,MultiBatch-method |
Man page
|
| ggChains |
Man page
|
| ggChains,MultiBatchModel-method |
Man page
|
| ggChains,MultiBatchPooled-method |
Man page
|
| ggMixture |
Man page
|
| ggMixture,MultiBatch-method |
Man page
|
| ggMixture,MultiBatchCopyNumber-method |
Man page
|
| ggMixture,MultiBatchCopyNumberPooled-method |
Man page
|
| ggMixture,MultiBatchModel-method |
Man page
|
| ggMixture,MultiBatchPooled-method |
Man page
|
| gibbs |
Man page
|
| hpList |
Man page
|
| hyperParams |
Man page
|
| hyperParams,MixtureModel-method |
Man page
|
| hyperParams<- |
Man page
|
| hyperParams<-,MixtureModel,Hyperparameters-method |
Man page
|
| hyperParams<-,MixtureModel-method |
Man page
|
| iter |
Man page
|
| iter,McmcParams-method |
Man page
|
| iter,MixtureModel-method |
Man page
|
| iter,burnin,nStarts,McmcParams-method |
Man page
|
| iter<- |
Man page
|
| iter<-,McmcParams,ANY-method |
Man page
|
| iter<-,McmcParams-method |
Man page
|
| iter<-,MixtureModel,ANY-method |
Man page
|
| iter<-,MixtureModel-method |
Man page
|
| k |
Man page
|
| k,Hyperparameters-method |
Man page
|
| k,MixtureModel-method |
Man page
|
| k,TrioBatchModel-method |
Man page
|
| k<- |
Man page
|
| k<-,Hyperparameters-method |
Man page
|
| k<-,HyperparametersTrios-method |
Man page
|
| k<-,MixtureModel-method |
Man page
|
| k<-,TrioBatchModel-method |
Man page
|
| label_switch |
Man page
|
| label_switch,MixtureModel-method |
Man page
|
| logBayesFactor |
Man page
|
| logPrior |
Man page
|
| logPrior,McmcChains-method |
Man page
|
| logPrior,MixtureModel-method |
Man page
|
| log_lik |
Man page
|
| log_lik,McmcChains-method |
Man page
|
| log_lik,MixtureModel-method |
Man page
|
| m2.0 |
Man page
|
| m2.0,Hyperparameters-method |
Man page
|
| m2.0,MixtureModel-method |
Man page
|
| mapCnProbability |
Man page
|
| mapCopyNumber |
Man page
|
| mapParams |
Man page
|
| map_z |
Man page
|
| mapping |
Man page
|
| mapping,MultiBatchCopyNumber,numeric-method |
Man page
|
| mapping,MultiBatchCopyNumber-method |
Man page
|
| mapping,MultiBatchCopyNumberPooled,numeric-method |
Man page
|
| mapping,MultiBatchCopyNumberPooled-method |
Man page
|
| mapping<- |
Man page
|
| mapping<-,MultiBatchCopyNumber,character-method |
Man page
|
| mapping<-,MultiBatchCopyNumberPooled,character-method |
Man page
|
| marginalLik |
Man page
|
| marginalLikelihood |
Man page
|
| marginalLikelihood,MultiBatchModel,ANY-method |
Man page
|
| marginalLikelihood,MultiBatchModel-method |
Man page
|
| marginalLikelihood,MultiBatchPooled-method |
Man page
|
| marginalLikelihood,list,ANY-method |
Man page
|
| marginalLikelihood,list-method |
Man page
|
| marginal_lik |
Man page
|
| marginal_lik,MixtureModel-method |
Man page
|
| marginal_lik<- |
Man page
|
| marginal_lik<-,MixtureModel,numeric-method |
Man page
|
| mcmcParams |
Man page
|
| mcmcParams,MixtureModel-method |
Man page
|
| mcmcParams,list-method |
Man page
|
| mcmcParams<- |
Man page
|
| mcmcParams<-,MixtureModel,ANY-method |
Man page
|
| mcmcParams<-,TrioBatchModel,ANY-method |
Man page
|
| mcmcParams<-,list,ANY-method |
Man page
|
| mlParams |
Man page
|
| modelName,MixtureModel-method |
Man page
|
| modes |
Man page
|
| modes,MixtureModel-method |
Man page
|
| modes<- |
Man page
|
| modes<-,MixtureModel-method |
Man page
|
| mu |
Man page
|
| mu,McmcChains-method |
Man page
|
| mu,MixtureModel-method |
Man page
|
| mu,MultiBatchModel-method |
Man page
|
| muMean |
Man page
|
| muc |
Man page
|
| nStarts |
Man page
|
| nStarts,McmcParams-method |
Man page
|
| nStarts,MixtureModel-method |
Man page
|
| nStarts<- |
Man page
|
| nStarts<-,McmcParams,ANY-method |
Man page
|
| nStarts<-,McmcParams-method |
Man page
|
| nStarts<-,MixtureModel,ANY-method |
Man page
|
| nStarts<-,MixtureModel-method |
Man page
|
| names,McmcChains-method |
Man page
|
| nu.0 |
Man page
|
| nu.0,McmcChains-method |
Man page
|
| nu.0,MixtureModel-method |
Man page
|
| numberObs |
Man page
|
| numberObs,MixtureModel-method |
Man page
|
| oned |
Man page
|
| oned,MixtureModel-method |
Man page
|
| orderModels |
Man page
|
| p,MixtureModel-method |
Man page
|
| pic |
Man page
|
| posteriorPredictive |
Man page
|
| posteriorSimulation |
Man page
|
| posteriorSimulation,MixtureModel-method |
Man page
|
| posteriorSimulation,TrioBatchModel-method |
Man page
|
| posterior_cases |
Man page
|
| pp |
Man page
|
| probCopyNumber |
Man page
|
| probCopyNumber,MultiBatchCopyNumber-method |
Man page
|
| probCopyNumber,MultiBatchCopyNumberPooled-method |
Man page
|
| probz |
Man page
|
| probz,MixtureModel-method |
Man page
|
| probzpar |
Man page
|
| probzpar,TrioBatchModel-method |
Man page
|
| qInverseTau2 |
Man page
|
| saveBatch |
Man page
|
| sigma |
Man page
|
| sigma,MixtureModel-method |
Man page
|
| sigma,MultiBatchCopyNumberPooled-method |
Man page
|
| sigma2 |
Man page
|
| sigma2,McmcChains-method |
Man page
|
| sigma2,MixtureModel-method |
Man page
|
| sigma2,MultiBatchCopyNumberPooled-method |
Man page
|
| sigma2,MultiBatchPooled-method |
Man page
|
| sigma2,missing-method |
Man page
|
| sigma2.0 |
Man page
|
| sigma2.0,McmcChains-method |
Man page
|
| sigma2.0,MixtureModel-method |
Man page
|
| sigma2<-,MultiBatchCopyNumberPooled,ANY-method |
Man page
|
| sigma2<-,MultiBatchCopyNumberPooled-method |
Man page
|
| sigma2<-,MultiBatchPooled,ANY-method |
Man page
|
| sigma<- |
Man page
|
| sigma<-,MultiBatchCopyNumberPooled-method |
Man page
|
| sigma_,MultiBatchCopyNumberPooled-method |
Man page
|
| sigmac |
Man page
|
| simulateBatchData |
Man page
|
| simulateData |
Man page
|
| singleBatchGuided,MultiBatchList,MultiBatch-method |
Man page
|
| tau |
Man page
|
| tau2 |
Man page
|
| tau2,McmcChains-method |
Man page
|
| tau2,MixtureModel-method |
Man page
|
| tauMean |
Man page
|
| tauc |
Man page
|
| theta |
Man page
|
| theta,McmcChains-method |
Man page
|
| theta,MixtureModel-method |
Man page
|
| theta<- |
Man page
|
| thin |
Man page
|
| thin,McmcParams-method |
Man page
|
| thin,MixtureModel-method |
Man page
|
| thin<- |
Man page
|
| thin<-,MixtureModel,numeric-method |
Man page
|
| tileMedians |
Man page
|
| tileSummaries |
Man page
|
| triodata_lrr |
Man page
|
| upSample2 |
Man page
|
| y |
Man page
|
| y,MixtureModel-method |
Man page
|
| z |
Man page
|
| z,MixtureModel-method |
Man page
|
| zFreq |
Man page
|
| zFreq,McmcChains-method |
Man page
|
| zFreq,MixtureModel-method |
Man page
|
| zFreqPar |
Man page
|
| zFreqPar,McmcChains-method |
Man page
|
| zfreq,McmcChains-method |
Man page
|
| zfreq,MixtureModel-method |
Man page
|
| zfreqpar,McmcChains-method |
Man page
|
