Files in celda
CEllular Latent Dirichlet Allocation

README.md
NAMESPACE
DESCRIPTION
LICENSE
build/vignette.rds
src/perplexity.c
src/matrixNorm.cpp
src/Makevars.win
src/RcppExports.cpp
src/eigenMatMultInt.cpp
src/DecontX.cpp
src/cG_calcGibbsProbY.cpp
src/Makevars
src/matrixSums.c
data/celdaCSim.rda
data/celdaCGMod.rda
data/celdaCMod.rda
data/sampleCells.rda
data/celdaGMod.rda
data/celdaCGSim.rda
data/celdaGSim.rda
data/contaminationSim.rda
data/celdaCGGridSearchRes.rda
R/celda_G.R R/matrixSums.R R/feature_selection.R R/semi_pheatmap.R R/celda_functions.R R/decon.R R/StateHeatmap.R R/plot_dr.R R/celdaGridSearch.R R/RcppExports.R R/findMarkersTree.R R/plot_decontx.R R/getDecisions.R R/geneSetEnrich.R R/initialize_clusters.R R/celda_C.R R/all_generics.R R/celda_heatmap.R R/split_clusters.R R/celda_CG.R R/elbow.R R/model_performance.R R/data.R R/recursiveSplit.R R/diffExp.R vignettes/decontX.Rmd vignettes/celda.Rmd man/plotDimReduceCluster.Rd man/plotMarkerDendro.Rd man/getDecisions.Rd man/simulateCells.Rd man/runParams-celdaList-method.Rd man/simulateContamination.Rd man/plotGridSearchPerplexitycelda_C.Rd man/sampleLabel.Rd man/plotGridSearchPerplexitycelda_G.Rd man/logLikelihoodHistory.Rd man/celdaHeatmap-celda_G-method.Rd man/matrixNames.Rd man/simulateCellscelda_G.Rd man/celdaGSim.Rd man/fastNormPropLog.Rd man/retrieveFeatureIndex.Rd man/matrixNames-celdaModel-method.Rd man/differentialExpression.Rd man/celdaCGMod.Rd man/bestLogLikelihood.Rd man/celdaTsne-celda_G-method.Rd man/params-celdaModel-method.Rd man/featureModuleLookup-celda_C-method.Rd man/factorizeMatrix-celda_CG-method.Rd man/celdaTsne-celda_C-method.Rd man/logLikelihoodcelda_CG.Rd man/contaminationSim.Rd man/celdaPerplexity.Rd man/resamplePerplexity.Rd man/topRank.Rd man/params.Rd man/celdaHeatmap.Rd man/resList.Rd man/plotHeatmap.Rd man/celdaUmap-celda_G-method.Rd man/celdaTsne.Rd man/plotGridSearchPerplexitycelda_CG.Rd man/plotDimReduceModule.Rd man/runParams.Rd man/resList-celdaList-method.Rd man/celda_G.Rd man/celdaCGGridSearchRes.Rd man/clusterProbability-celda_C-method.Rd man/celdaProbabilityMap.Rd man/featureModuleLookup-celda_CG-method.Rd man/featureModuleLookup.Rd man/plotDimReduceGrid.Rd man/clusters-celdaModel-method.Rd man/recodeClusterZ.Rd man/fastNormPropSqrt.Rd man/featureModuleTable.Rd man/celdaPerplexity-celdaList-method.Rd man/subsetCeldaList.Rd man/findMarkersTree.Rd man/countChecksum.Rd man/geneSetEnrich.Rd man/sampleLabel-celdaModel-method.Rd man/recursiveSplitCell.Rd man/plotMarkerHeatmap.Rd man/sampleCells.Rd man/celdaTsne-celda_CG-method.Rd man/celdaUmap.Rd man/availableModels.Rd man/normalizeCounts.Rd man/perplexity.Rd man/factorizeMatrix-celda_C-method.Rd man/factorizeMatrix.Rd man/decontX.Rd man/logLikelihood.Rd man/plotGridSearchPerplexity.Rd man/appendCeldaList.Rd man/plotDimReduceFeature.Rd man/celdaCGSim.Rd man/clusterProbability.Rd man/moduleHeatmap.Rd man/eigenMatMultInt.Rd man/celdaGMod.Rd man/fastNormProp.Rd man/perplexity-celda_C-method.Rd man/celdaHeatmap-celda_C-method.Rd man/simulateCellscelda_C.Rd man/simulateCellscelda_CG.Rd man/celdaHeatmap-celda_CG-method.Rd man/logLikelihoodcelda_G.Rd man/celda_C.Rd man/bestLogLikelihood-celdaModel-method.Rd man/celdaCSim.Rd man/recursiveSplitModule.Rd man/celdaCMod.Rd man/perplexity-celda_CG-method.Rd man/factorizeMatrix-celda_G-method.Rd man/logLikelihoodHistory-celdaModel-method.Rd man/plotDecontXMarkerPercentage.Rd man/clusterProbability-celda_G-method.Rd man/celdaProbabilityMap-celda_CG-method.Rd man/celdaUmap-celda_CG-method.Rd man/logLikelihoodcelda_C.Rd man/compareCountMatrix.Rd man/selectBestModel.Rd man/countChecksum-celdaList-method.Rd man/celdaGridSearch.Rd man/clusterProbability-celda_CG-method.Rd man/plotDecontXContamination.Rd man/semiPheatmap.Rd man/celda.Rd man/perplexity-celda_G-method.Rd man/distinctColors.Rd man/featureModuleLookup-celda_G-method.Rd man/recodeClusterY.Rd man/clusters.Rd man/plotCeldaViolin.Rd man/nonzero.Rd man/plotDecontXMarkerExpression.Rd man/celda_CG.Rd man/decontXcounts.Rd man/celdaUmap-celda_C-method.Rd man/celdaProbabilityMap-celda_C-method.Rd tests/testthat.R tests/testthat/test-matrixSums.R tests/testthat/test-decon.R tests/testthat/test-celda_G.R tests/testthat/test-celda_C.R tests/testthat/test-intialize_cluster.R tests/testthat/test-with_seed.R tests/testthat/test-celda-functions.R tests/testthat/test-celda_CG.R
inst/NEWS
inst/doc/decontX.pdf inst/doc/celda.R inst/doc/decontX.Rmd inst/doc/decontX.R inst/doc/celda.Rmd inst/doc/celda.pdf
celda documentation built on June 9, 2020, 2 a.m.