NAMESPACE

# Generated by roxygen2: do not edit by hand

export("scpModelFilterThreshold<-")
export(addReducedDims)
export(aggregateFeaturesOverAssays)
export(computeSCR)
export(cumulativeSensitivityCurve)
export(divideByReference)
export(jaccardIndex)
export(medianCVperCell)
export(normalizeSCP)
export(pep2qvalue)
export(predictSensitivity)
export(readSCP)
export(readSCPfromDIANN)
export(readSingleCellExperiment)
export(reportMissingValues)
export(scpAnnotateResults)
export(scpComponentAggregate)
export(scpComponentAnalysis)
export(scpComponentBiplot)
export(scpComponentPlot)
export(scpDifferentialAggregate)
export(scpDifferentialAnalysis)
export(scpKeepEffect)
export(scpModelComponentMethods)
export(scpModelEffects)
export(scpModelFilterNPRatio)
export(scpModelFilterPlot)
export(scpModelFilterThreshold)
export(scpModelFormula)
export(scpModelInput)
export(scpModelNames)
export(scpModelResiduals)
export(scpModelWorkflow)
export(scpRemoveBatchEffect)
export(scpVarianceAggregate)
export(scpVarianceAnalysis)
export(scpVariancePlot)
export(scpVolcanoPlot)
exportClasses(ScpModel)
exportClasses(ScpModelFit)
import(QFeatures)
import(RColorBrewer)
import(SingleCellExperiment)
import(SummarizedExperiment)
import(ggplot2)
importFrom(IHW,adj_pvalues)
importFrom(IHW,ihw)
importFrom(MsCoreUtils,normalize_matrix)
importFrom(MultiAssayExperiment,"experiments<-")
importFrom(MultiAssayExperiment,ExperimentList)
importFrom(MultiAssayExperiment,experiments)
importFrom(QFeatures,aggregateFeatures)
importFrom(QFeatures,readSummarizedExperiment)
importFrom(QFeatures,reduceDataFrame)
importFrom(S4Vectors,"metadata<-")
importFrom(S4Vectors,DataFrame)
importFrom(S4Vectors,List)
importFrom(S4Vectors,endoapply)
importFrom(S4Vectors,metadata)
importFrom(SingleCellExperiment,"reducedDims<-")
importFrom(SummarizedExperiment,"assays<-")
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,assayNames)
importFrom(SummarizedExperiment,assays)
importFrom(SummarizedExperiment,colData)
importFrom(SummarizedExperiment,rowData)
importFrom(ggrepel,geom_label_repel)
importFrom(ggrepel,geom_text_repel)
importFrom(matrixStats,colMedians)
importFrom(metapod,combineGroupedPValues)
importFrom(methods,as)
importFrom(methods,new)
importFrom(nipals,nipals)
importFrom(stats,as.formula)
importFrom(stats,median)
importFrom(stats,model.matrix)
importFrom(stats,nls)
importFrom(stats,p.adjust)
importFrom(stats,predict)
importFrom(stats,pt)
importFrom(stats,reformulate)
importFrom(stats,sd)
importFrom(stats,terms)
importFrom(stats,var)
importFrom(utils,flush.console)
importFrom(utils,setTxtProgressBar)
importFrom(utils,txtProgressBar)