Man pages for splatter
Simple Simulation of Single-cell RNA Sequencing Data

addFeatureStats	Add feature statistics
addGeneLengths	Add gene lengths
BASiCSEstimate	Estimate BASiCS simulation parameters
BASiCSParams	The BASiCSParams class
BASiCSSimulate	BASiCS simulation
bridge	Brownian bridge
bringItemsForward	Bring items forward
checkDependencies	Check dependencies
compareSCEs	Compare SingleCellExperiment objects
co.var	Calculate coefficient of variation
diffSCEs	Diff SingleCellExperiment objects
expandParams	Expand parameters
getBetaStepProbs	Get Beta step probabilities
getCounts	Get counts
getLNormFactors	Get log-normal factors
getParam	Get a parameter
getParams	Get parameters
getPathOrder	Get path order
kersplatEstBCV	Estimate Kersplat BCV parameters
kersplatEstimate	Estimate Kersplat simulation parameters
kersplatEstLib	Estimate Kersplat library size parameters
kersplatEstMean	Estimate Kersplat means
kersplatGenNetwork	Generate Kersplat gene network
KersplatParams	The KersplatParams class
kersplatSample	Kersplat sample
kersplatSelectRegs	Select Kersplat regulators
kersplatSetup	Kersplat setup
kersplatSimAmbientCounts	Simulate Kersplat ambient counts
kersplatSimCellCounts	Simulate Kersplat cell counts
kersplatSimCellMeans	Simulate Kersplat cell means
kersplatSimCounts	Simulate Kersplat final counts
kersplatSimGeneMeans	Simulate Kersplat gene means
kersplatSimLibSizes	Simulate Kersplat library sizes
kersplatSimPaths	Simulate Kersplat paths
kersplatSimulate	Kersplat simulation
listSims	List simulations
logistic	Logistic function
lun2Estimate	Estimate Lun2 simulation parameters
Lun2Params	The Lun2Params class
lun2Simulate	Lun2 simulation
lunEstimate	Estimate Lun simulation parameters
LunParams	The LunParams class
lunSimulate	Lun simulation
makeCompPanel	Make comparison panel
makeDiffPanel	Make difference panel
makeOverallPanel	Make overall panel
mfaEstimate	Estimate mfa simulation parameters
MFAParams	The MFAParams class
mfaSimulate	MFA simulation
minimiseSCE	Minimise SCE
mockBulkeQTL	Generate mock eQTL mapping results
mockBulkMatrix	Generate mock bulk population scale expression data
mockGFF	Generate mock gff
mockVCF	Generate mock vcf
newParams	New Params
Params	The Params virtual class
phenoEstimate	Estimate PhenoPath simulation parameters
PhenoParams	The PhenoParams class
phenoSimulate	PhenoPath simulation
rbindMatched	Bind rows (matched)
sampleDensity	Sample density
scDDEstimate	Estimate scDD simulation parameters
SCDDParams	The SCDDParams class
scDDSimulate	scDD simulation
selectFit	Select fit
setParam	Set a parameter
setParams	Set parameters
setParamsUnchecked	Set parameters UNCHECKED
setParamUnchecked	Set a parameter UNCHECKED
showDFs	Show data.frame
showPP	Show pretty print
showValues	Show values
simpleEstimate	Estimate simple simulation parameters
SimpleParams	The SimpleParams class
simpleSimulate	Simple simulation
sparseDCEstimate	Estimate SparseDC simulation parameters
SparseDCParams	The SparseDCParams class
sparseDCSimulate	SparseDC simulation
sparsifyMatrices	Sparsify matrices
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
SplatParams	The SplatParams class
splatPopAssignMeans	Sample expression mean and variance for each gene
splatPopCleanSCE	Clean up the population-scale SCE to remove redundant...
splatPopeQTLEffects	Assign eGenes-eSNPs pairs and effect sizes.
splatPopEstimate	Estimate population/eQTL simulation parameters
splatPopEstimateEffectSize	Estimate eQTL Effect Size parameters
splatPopEstimateMeanCV	Estimate gene mean and gene mean variance parameters
splatPopGroupEffects	Assign group-specific eQTL and DEGs.
SplatPopParams	The SplatPopParams class
splatPopParseGenes	Generate population key matrix from random or gff provided...
splatPopParseVCF	Format and subset genotype data from a VCF file.
splatPopQuantNorm	Quantile normalize by sample to fit sc expression...
splatPopQuantNormKey	Add quantile normalized gene mean and cv info the eQTL key.
splatPopSimEffects	Add eQTL effects to means matrix
splatPopSimGeneMeans	Simulate gene means for splatPop
splatPopSimMeans	Simulate mean gene expression matrix without eQTL effects
splatPopSimulate	splatPop simulation
splatPopSimulateMeans	splatPopSimulateMeans
splatPopSimulateSample	splatPopSimulateSample simulation
splatPopSimulateSC	splatPopSimulateSC
splatSimBatchCellMeans	Simulate batch means
splatSimBatchEffects	Simulate batch effects
splatSimBCVMeans	Simulate BCV means
splatSimCellMeans	Simulate cell means
splatSimDE	Simulate group differential expression
splatSimDropout	Simulate dropout
splatSimGeneMeans	Simulate gene means
splatSimLibSizes	Simulate library sizes
splatSimTrueCounts	Simulate true counts
splatSimulate	Splat simulation
splatter	splatter.
summariseDiff	Summarise diffSCEs
summariseKS	Summarise KS
summariseStats	Summarise statistics
tidyStatSumm	Tidy summarised statistics
winsorize	Winsorize vector
zinbEstimate	Estimate ZINB-WaVE simulation parameters
ZINBParams	The ZINBParams class
zinbSimulate	ZINB-WaVE simulation