BASiCS
Bayesian Analysis of Single-Cell Sequencing data

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Search the BASiCS package
Vignettes
Functions
215
Source code
72
Man pages
54
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BASiCS: Bayesian Analysis of Single-Cell Sequencing data
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API

API for BASiCS
Bayesian Analysis of Single-Cell Sequencing data

Global functions
.BASiCS_DenoisedRates Source code
.BASiCS_MCMC_ExtraArgs Source code
.BASiCS_MCMC_GlobalParams Source code
.BASiCS_MCMC_InputCheck Source code
.BASiCS_MCMC_NoSpikesParam Source code
.BASiCS_MCMC_OutputStore Source code
.BASiCS_MCMC_RefFreqStore Source code
.BASiCS_MCMC_Start Source code
.BASiCS_MCMCcpp Source code
.BASiCS_MCMCcppNoSpikes Source code
.BASiCS_MCMCcppReg Source code
.BASiCS_MCMCcppRegNoSpikes Source code
.CellParams Source code
.CheckESS Source code
.CheckProbEFDR Source code
.CheckValidCombination Source code
.ChecksBASiCS_Data Source code
.DiffRes Source code
.DistanceName Source code
.DistanceVar Source code
.EFDR Source code
.EFNR Source code
.EmpiricalBayesMu Source code
.GeneParams Source code
.GetMeasure Source code
.GetParam Source code
.GridPlot Source code
.HeaderDetectHVG_LVG Source code
.LogDistanceName Source code
.MAPlot Source code
.MeasureName Source code
.NClassFD2D Source code
.NSamples Source code
.RunTest Source code
.ScaleName Source code
.TailProb Source code
.TestDifferential Source code
.TestResults Source code
.ThresholdSearch Source code
.VG Source code
.VGGridPlot Source code
.VGPlot Source code
.VolcanoPlot Source code
.WhichDiffRes Source code
.betaUpdateReg Source code
.cap Source code
.combine_subposteriors Source code
.consensus_average Source code
.deltaUpdate Source code
.deltaUpdateReg Source code
.deltaUpdateRegNoSpikes Source code
.designMatrix Source code
.estimateRBFLocations Source code
.generateSubsets Man page Source code
.iterate_chains Source code
.lambdaUpdateReg Source code
.muUpdate Source code
.muUpdateNoSpikes Source code
.muUpdateReg Source code
.muUpdateRegNoSpikes Source code
.nuUpdateBatch Source code
.nuUpdateBatchNoSpikes Source code
.offset_correct Source code
.onAttach Source code
.phiUpdate Source code
.quantile_average Source code
.rDirichlet Source code
.reorder_params Source code
.sUpdateBatch Source code
.sigma2UpdateReg Source code
.stop_k Source code
.subset Source code
.thetaUpdateBatch Source code
.updateObject Source code
.weighted_posterior_average Source code
BASiCS-defunct Man page
BASiCS_Chain Man page
BASiCS_Chain-class Man page
BASiCS_Chain-methods Man page
BASiCS_CorrectOffset Man page Source code
BASiCS_D_TestDE Man page
BASiCS_DenoisedCounts Man page Source code
BASiCS_DenoisedRates Man page Source code
BASiCS_DetectHVG Man page Source code
BASiCS_DetectHVGLVG Man page
BASiCS_DetectHVG_LVG Man page
BASiCS_DetectLVG Man page Source code
BASiCS_DetectVG Man page Source code
BASiCS_DiagHist Man page Source code
BASiCS_DiagPlot Man page Source code
BASiCS_DivideAndConquer Man page Source code
BASiCS_Draw Man page Source code
BASiCS_EffectiveSize Man page Source code
BASiCS_Filter Man page Source code
BASiCS_LoadChain Man page Source code
BASiCS_MCMC Man page Source code
BASiCS_MockSCE Man page Source code
BASiCS_PlotDE Man page
BASiCS_PlotDE,BASiCS_ResultDE-method Man page
BASiCS_PlotDE,BASiCS_ResultsDE-method Man page
BASiCS_PlotDE,missing-method Man page
BASiCS_PlotOffset Man page Source code
BASiCS_PlotVG Man page Source code
BASiCS_PriorParam Man page Source code
BASiCS_Result Man page
BASiCS_Result-class Man page
BASiCS_ResultDE Man page
BASiCS_ResultDE-class Man page
BASiCS_ResultVG Man page
BASiCS_ResultVG-class Man page
BASiCS_ResultsDE Man page
BASiCS_ResultsDE-class Man page
BASiCS_ShowFit Man page Source code
BASiCS_Sim Man page Source code
BASiCS_Summary Man page
BASiCS_Summary-class Man page
BASiCS_Summary-methods Man page
BASiCS_TestDE Man page Source code
BASiCS_VarThresholdSearchHVG Man page Source code
BASiCS_VarThresholdSearchHVG_LVG Man page
BASiCS_VarThresholdSearchLVG Man page Source code
BASiCS_VarThresholdSearchVG Man page Source code
BASiCS_VarianceDecomp Man page Source code
BASiCS_diagHist Man page Source code
BASiCS_diagPlot Man page Source code
BASiCS_effectiveSize Man page Source code
BASiCS_showFit Man page Source code
ChainRNA Man page
ChainRNAReg Man page
ChainSC Man page
ChainSCReg Man page
ColourMap Source code
DiffExp Source code
HiddenBASiCS_Sim Source code
HiddenCheckThresholds Source code
HiddenHeaderBASiCS_Sim Source code
HiddenHeaderTest_DE Source code
HiddenVarDecomp Source code
Summary Man page
Summary,BASiCS_Chain-method Man page
[,BASiCS_Result,ANY,ANY,ANY-method Man page
[,BASiCS_ResultsDE,ANY,ANY,ANY-method Man page
[[,BASiCS_ResultsDE,ANY,ANY-method Man page
as.data.frame,BASiCS_ResultDE-method Man page
as.data.frame,BASiCS_ResultVG-method Man page
as.data.frame,BASiCS_ResultsDE-method Man page
bplapply Source code
dim Man page
dim,BASiCS_Chain-method Man page
dimnames Man page
dimnames,BASiCS_Chain-method Man page
displayChainBASiCS Man page
displayChainBASiCS,BASiCS_Chain-method Man page
displayChainBASiCS-BASiCS_Chain-method Man page
displaySummaryBASiCS Man page
displaySummaryBASiCS,BASiCS_Summary-method Man page
displaySummaryBASiCS-BASiCS_Summary-method Man page
ess Source code
format,BASiCS_ResultDE-method Man page
format,BASiCS_ResultVG-method Man page
format,BASiCS_ResultsDE-method Man page
makeExampleBASiCS_Data Man page Source code
newBASiCS_Chain Man page Source code
newBASiCS_Data Man page Source code
plot,BASiCS_Chain,ANY-method Man page
plot,BASiCS_Chain-method Man page
plot,BASiCS_Summary,ANY-method Man page
plot,BASiCS_Summary-method, Man page
plot-BASiCS_Chain-method Man page
plot-BASiCS_Summary-method Man page
rowData,BASiCS_ResultVG-method Man page
rowData,BASiCS_ResultsDE-method Man page
rowData<-,BASiCS_ResultVG-method Man page
rowData<-,BASiCS_ResultsDE-method Man page
show,BASiCS_Chain-method Man page
show,BASiCS_ResultDE-method Man page
show,BASiCS_ResultVG-method Man page
show,BASiCS_ResultsDE-method Man page
show,BASiCS_Summary-method Man page
subset Man page
subset,BASiCS_Chain-method Man page
updateObject,BASiCS_Chain-method Man page
BASiCS documentation built on April 16, 2021, 6 p.m.

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