Files in pagoda2
Single Cell Analysis and Differential Expression

MD5
README.md
NAMESPACE
DESCRIPTION
R/RcppExports.R R/cell.scoring.R R/largeVis.R R/p1_liftover.R R/p1app4p2.R R/pagoda2WebApp.R R/Pagoda2.R R/pagodaWebHelpers.R R/pagodaWebSelections.R R/helpers.R R/pipelineHelpers.R
src/Makevars.win
src/Makevars
src/misc2.cpp
src/RcppExports.cpp
src/binaryExport.cpp
src/rank.cpp
src/edgeweights.cpp
src/gradients.cpp
src/checkfunctions.cpp
src/pagoda1_liftover.cpp
src/largeVis.cpp
src/include/alias.h
src/include/pagoda2.h
src/include/binaryExport.h
src/include/largeVis.h
src/include/gradients.h
inst/pagoda2.Rmd
inst/pagoda_logo.png
inst/COPYRIGHTS
inst/extdata/sample_BM1_50.rds
inst/rookServerDocs/makeJSdoc.sh
inst/rookServerDocs/index.html
inst/rookServerDocs/img/loading.gif
inst/rookServerDocs/js/exceptions.js
inst/rookServerDocs/js/p2FormatReader.js
inst/rookServerDocs/js/diffExprTableViewer.js
inst/rookServerDocs/js/p2globalParams.js
inst/rookServerDocs/js/embeddingViewer.js
inst/rookServerDocs/js/eventBus.js
inst/rookServerDocs/js/dataController.js
inst/rookServerDocs/js/cellSelectionController.js
inst/rookServerDocs/js/pagoda2frontend.js
inst/rookServerDocs/js/calculationController.js
inst/rookServerDocs/js/DataControllerFile.js
inst/rookServerDocs/js/actionPanelUIcontroller.js
inst/rookServerDocs/js/sparseMatrix.js
inst/rookServerDocs/js/pagodaHelper.js
inst/rookServerDocs/js/geneSelectionUIcontroller.js
inst/rookServerDocs/js/aspectsTableViewer.js
inst/rookServerDocs/js/LocalFileReader.js
inst/rookServerDocs/js/paletteManager.js
inst/rookServerDocs/js/pointInPolygon.js
inst/rookServerDocs/js/geneSelectionController.js
inst/rookServerDocs/js/graphViewer.js
inst/rookServerDocs/js/LoadingProgressTracker.js
inst/rookServerDocs/js/embeddingViewerScatterCanvas.js
inst/rookServerDocs/js/hclust.js
inst/rookServerDocs/js/differentialExpressionStore.js
inst/rookServerDocs/js/metaDataHeatmapViewer.js
inst/rookServerDocs/js/cellSelectionUIcontroller.js
inst/rookServerDocs/js/geneSelectionTableViewer.js
inst/rookServerDocs/js/lightDeWorker.js
inst/rookServerDocs/js/geneSetsTableViewer.js
inst/rookServerDocs/js/odGeneTableViewer.js
inst/rookServerDocs/js/heatmapDendrogramViewer.js
inst/rookServerDocs/js/dendrogramViewer.js
inst/rookServerDocs/js/heatmapViewer.js
inst/rookServerDocs/js/clickableRegions.js
inst/rookServerDocs/js/geneTableViewer.js
inst/rookServerDocs/js/aspectHeatmapViewer.js
inst/rookServerDocs/js/statusBar.js
inst/rookServerDocs/js/deResultSet.js
inst/rookServerDocs/js/p2FileReader.js
inst/rookServerDocs/js/RemoteFileReader.js
inst/rookServerDocs/js/DataControllerServer.js
inst/rookServerDocs/css/pagodaMain.css
tests/testthat.R tests/testthat/test_functions.R man/getColorsFromP2Selection.Rd man/getCellsInSelections.Rd man/p2ViewPagodaApp.Rd man/p2.generate.human.go.Rd man/subsetSignatureToData.Rd man/plotMulticlassified.Rd man/writePagoda2SelectionFile.Rd man/cellsPerSelectionGroup.Rd man/make.p2.app.Rd man/read.10x.matrices.Rd man/buildWijMatrix.Rd man/basicP2web.Rd man/gene.vs.molecule.cell.filter.Rd man/score.cells.nb0.Rd man/calcMulticlassified.Rd man/score.cells.puram.Rd man/pagoda2WebApp_packCompressFloat64Array.Rd man/papply.Rd man/pagoda2WebApp_reducedDendrogramJSON.Rd man/p2.generate.human.go.web.Rd man/p2.make.pagoda1.app.Rd man/areColors.Rd man/pagoda2WebApp_getCompressedEmbedding.Rd man/writeGenesAsPagoda2Selection.Rd man/factorListToMetadata.Rd man/pagoda2WebApp_sparseMatList.Rd man/plotOneWithValues.Rd man/cldend2array.Rd man/hierDiffToGenesets.Rd man/basicP2proc.Rd man/p2.generate.go.Rd man/p2.toweb.hdea.Rd man/Mode.Rd man/p2.generate.go.web.Rd man/factorFromP2Selection.Rd man/collapse.aspect.clusters.Rd man/pagoda2WebApp.Rd man/p2.metadata.from.factor.Rd man/pagoda2WebApp_cellmetadataJSON.Rd man/sgdBatches.Rd man/armaCor.Rd man/plotSelectionOverlaps.Rd man/pagoda2WebApp_call.Rd man/pagoda2WebApp_cellOrderJSON.Rd man/score.cells.nb1.Rd man/show.app.Rd man/pagoda2WebApp_packCompressInt32Array.Rd man/pagoda2WebApp_generateDendrogramOfGroups.Rd man/pagoda2WebApp_arrayToJSON.Rd man/pagoda2WebApp_geneInformationJSON.Rd man/webP2proc.Rd man/p2.generate.dr.go.web.Rd man/pathway.pc.correlation.distance.Rd man/sn.Rd man/compareClusterings.Rd man/readPagoda2SelectionFile.Rd man/namedNames.Rd man/view.aspects.Rd man/minMaxScale.Rd man/pagoda2WebApp_availableAspectsJSON.Rd man/Pagoda2.Rd man/pagoda.reduce.redundancy.Rd man/pagoda2WebApp_generateEmbeddingStructure.Rd man/pagoda.reduce.loading.redundancy.Rd man/tp2c.view.pathways.Rd man/read10xMatrix.Rd man/validateSelectionsObject.Rd man/getClusterLabelsFromSelection.Rd man/p2.generate.mouse.go.Rd man/pagoda2WebApp_serializeToStaticFast.Rd man/p2.generate.mouse.go.web.Rd man/p2.generate.dr.go.Rd man/readPagoda2SelectionAsFactor.Rd man/get.de.geneset.Rd man/removeSelectionOverlaps.Rd man/pagoda2WebApp_generateGeneKnnJSON.Rd man/generateClassificationAnnotation.Rd man/factorToP2selection.Rd man/diffExprOnP2FromWebSelection.Rd man/dot-onUnload.Rd man/winsorize.matrix.Rd man/get.control.geneset.Rd man/projectKNNs.Rd man/pagoda2WebApp_readStaticFile.Rd man/extendedP2proc.Rd man/diffExprOnP2FromWebSelectionOneGroup.Rd man/pagoda2WebApp_serverLog.Rd man/p2.generate.go.web.fromGOEnv.Rd man/getIntExtNamesP2Selection.Rd
pagoda2 documentation built on June 24, 2024, 9:09 a.m.