NAMESPACE

# Generated by roxygen2: do not edit by hand

export(appendCeldaList)
export(availableModels)
export(bestLogLikelihood)
export(celda)
export(celdaGridSearch)
export(celdaHeatmap)
export(celdaPerplexity)
export(celdaProbabilityMap)
export(celdaTsne)
export(celdaUmap)
export(celda_C)
export(celda_CG)
export(celda_G)
export(clusterProbability)
export(clusters)
export(compareCountMatrix)
export(decontX)
export(differentialExpression)
export(distinctColors)
export(factorizeMatrix)
export(featureModuleLookup)
export(featureModuleTable)
export(geneSetEnrich)
export(logLikelihood)
export(logLikelihoodCeldaC)
export(logLikelihoodCeldaCG)
export(logLikelihoodCeldaG)
export(logLikelihoodHistory)
export(matrixNames)
export(moduleHeatmap)
export(normalizeCounts)
export(params)
export(perplexity)
export(plotDimReduceCluster)
export(plotDimReduceFeature)
export(plotDimReduceGrid)
export(plotDimReduceModule)
export(plotGridSearchPerplexity)
export(plotGridSearchPerplexity.celda_C)
export(plotGridSearchPerplexity.celda_CG)
export(plotGridSearchPerplexity.celda_G)
export(plotHeatmap)
export(recodeClusterY)
export(recodeClusterZ)
export(recursiveSplitCell)
export(recursiveSplitModule)
export(resList)
export(resamplePerplexity)
export(runParams)
export(sampleLabel)
export(selectBestModel)
export(semiPheatmap)
export(simulateCells)
export(simulateCells.celda_C)
export(simulateCells.celda_CG)
export(simulateCells.celda_G)
export(simulateContaminatedMatrix)
export(subsetCeldaList)
export(topRank)
export(violinPlot)
exportMethods(bestLogLikelihood)
exportMethods(celdaHeatmap)
exportMethods(celdaPerplexity)
exportMethods(celdaProbabilityMap)
exportMethods(celdaTsne)
exportMethods(celdaUmap)
exportMethods(clusterProbability)
exportMethods(clusters)
exportMethods(factorizeMatrix)
exportMethods(featureModuleLookup)
exportMethods(logLikelihoodHistory)
exportMethods(matrixNames)
exportMethods(params)
exportMethods(perplexity)
exportMethods(resList)
exportMethods(runParams)
exportMethods(sampleLabel)
import(MAST, except = c(combine))
import(RColorBrewer)
import(Rcpp)
import(RcppEigen)
import(SummarizedExperiment, except = c(shift, rowRanges))
import(data.table)
import(foreach)
import(grDevices)
import(graphics)
import(grid)
import(gridExtra)
import(gridExtra, except = c(combine))
import(gtable)
import(matrixStats, except = c(count))
import(plyr)
import(scales)
useDynLib(celda,"_colSumByGroup")
useDynLib(celda,"_colSumByGroupChange")
useDynLib(celda,"_colSumByGroup_numeric")
useDynLib(celda,"_perplexityG")
useDynLib(celda,"_rowSumByGroup")
useDynLib(celda,"_rowSumByGroupChange")
useDynLib(celda,"_rowSumByGroup_numeric")