Function reference • Splatter

Package Package description
`splatter`	splatter.
Parameters Parameters functions and classes
`newBASiCSParams()` `newKersplatParams()` `newLun2Params()` `newLunParams()` `newMFAParams()` `newPhenoParams()` `newSCDDParams()` `newSimpleParams()` `newSparseDCParams()` `newSplatParams()` `newZINBParams()`	New Params
`getParam()`	Get a parameter
`getParams()`	Get parameters
`setParam()`	Set a parameter
`setParams()`	Set parameters
`BASiCSParams`	The BASiCSParams class
`KersplatParams`	The KersplatParams class
`Lun2Params`	The Lun2Params class
`LunParams`	The LunParams class
`MFAParams`	The MFAParams class
`Params`	The Params virtual class
`PhenoParams`	The PhenoParams class
`SCDDParams`	The SCDDParams class
`SimpleParams`	The SimpleParams class
`SplatParams`	The SplatParams class
`SparseDCParams`	The SparseDCParams class
`ZINBParams`	The ZINBParams class
Estimation Functions for estimating parameters
`BASiCSEstimate()`	Estimate BASiCS simulation parameters
`kersplatEstimate()`	Estimate Kersplat simulation parameters
`kersplatEstBCV()`	Estimate Kersplat BCV parameters
`kersplatEstLib()`	Estimate Kersplat library size parameters
`kersplatEstMean()`	Estimate Kersplat means
`lun2Estimate()`	Estimate Lun2 simulation parameters
`lunEstimate()`	Estimate Lun simulation parameters
`mfaEstimate()`	Estimate mfa simulation parameters
`phenoEstimate()`	Estimate PhenoPath simulation parameters
`scDDEstimate()`	Estimate scDD simulation parameters
`simpleEstimate()`	Estimate simple simulation parameters
`splatEstBCV()`	Estimate Splat Biological Coefficient of Variation parameters
`splatEstDropout()`	Estimate Splat dropout parameters
`splatEstimate()`	Estimate Splat simulation parameters
`splatEstLib()`	Estimate Splat library size parameters
`splatEstMean()`	Estimate Splat mean parameters
`splatEstOutlier()`	Estimate Splat expression outlier parameters
`sparseDCEstimate()`	Estimate SparseDC simulation parameters
`zinbEstimate()`	Estimate ZINB-WaVE simulation parameters
Simulation Functions for simulating datasets
`BASiCSSimulate()`	BASiCS simulation
`kersplatGenNetwork()`	Generate Kersplat gene network
`kersplatSample()`	Kersplat sample
`kersplatSelectRegs()`	Select Kersplat regulators
`kersplatSetup()`	Kersplat setup
`kersplatSimAmbientCounts()`	Simulate Kersplat ambient counts
`kersplatSimCellCounts()`	Simulate Kersplat cell counts
`kersplatSimCounts()`	Simulate Kersplat final counts
`kersplatSimCellMeans()`	Simulate Kersplat cell means
`kersplatSimGeneMeans()`	Simulate Kersplat gene means
`kersplatSimLibSizes()`	Simulate Kersplat library sizes
`kersplatSimPaths()`	Simulate Kersplat paths
`kersplatSimulate()`	Kersplat simulation
`lun2Simulate()`	Lun2 simulation
`lunSimulate()`	Lun simulation
`mfaSimulate()`	MFA simulation
`phenoSimulate()`	PhenoPath simulation
`scDDSimulate()`	scDD simulation
`simpleSimulate()`	Simple simulation
`splatSimBatchCellMeans()`	Simulate batch means
`splatSimBatchEffects()`	Simulate batch effects
`splatSimBCVMeans()`	Simulate BCV means
`splatSimSingleCellMeans()` `splatSimGroupCellMeans()` `splatSimPathCellMeans()`	Simulate cell means
`splatSimGroupDE()` `splatSimPathDE()`	Simulate group differential expression
`splatSimDropout()`	Simulate dropout
`splatSimGeneMeans()`	Simulate gene means
`splatSimLibSizes()`	Simulate library sizes
`splatSimTrueCounts()`	Simulate true counts
`splatSimulate()` `splatSimulateSingle()` `splatSimulateGroups()` `splatSimulatePaths()`	Splat simulation
`sparseDCSimulate()`	SparseDC simulation
`zinbSimulate()`	ZINB-WaVE simulation
Comparison functions Functions for comparing datasets
`compareSCEs()`	Compare SingleCellExperiment objects
`diffSCEs()`	Diff SingleCellExperiment objects
`makeCompPanel()`	Make comparison panel
`makeDiffPanel()`	Make difference panel
`makeOverallPanel()`	Make overall panel
`summariseKS()`	Summarise KS
`summariseDiff()`	Summarise diffSCEs
`summariseStats()`	Summarise statistics
`tidyStatSumm()`	Tidy summarised statistics
Other exported functions Additional functions exported by Splatter
`addFeatureStats()`	Add feature statistics
`addGeneLengths()`	Add gene lengths
`listSims()`	List simulations
Internals Additional internal functions and helpers
`bridge()`	Brownian bridge
`bringItemsForward()`	Bring items forward
`expandParams()`	Expand parameters
`getBetaStepProbs()`	Get Beta step probabilities
`getCounts()`	Get counts
`getLNormFactors()`	Get log-normal factors
`getPathOrder()`	Get path order
`logistic()`	Logistic function
`rbindMatched()`	Bind rows (matched)
`sampleDensity()`	Sample density
`selectFit()`	Select fit
`setParamsUnchecked()`	Set parameters UNCHECKED
`setParamUnchecked()`	Set a parameter UNCHECKED
`showDFs()`	Show data.frame
`showPP()`	Show pretty print
`showValues()`	Show values
`winsorize()`	Winsorize vector

Reference

Package

Parameters

Estimation

Simulation

Comparison functions

Other exported functions

Internals