Files in nephantes/debrowser_bioconductor_release

Interactive Differential Expresion Analysis Browser

R/GOterm.R R/IQR.R R/QCSection.R R/all2all.R R/barmain.R R/batcheffect.R R/boxmain.R R/condSelect.R R/dataLoad.R R/density.R R/deprogs.R R/funcs.R R/gopanel.R R/heatmap.R R/help.R R/histogram.R R/installpack.R R/lowcountfilter.R R/mainScatter.R R/pca.R R/plotSize.R R/plot_props.R R/prepdata.R R/server.R R/startShiny.R R/ui.R R/uifuncs.R README.md inst/examples/appAll2All.R inst/examples/appBarMain.R inst/examples/appBatchEffect.R inst/examples/appBoxMain.R inst/examples/appCondSelect.R inst/examples/appDEAnalysis.R inst/examples/appDEWithCond.R inst/examples/appDataPrep.R inst/examples/appDensity.R inst/examples/appHeatmap.R inst/examples/appHistogram.R inst/examples/appIQR.R inst/examples/appLowCountFilter.R inst/examples/appMain.R inst/examples/appMainHeatmap.R inst/examples/appMainHeatmapBar.R inst/examples/appPCA.R inst/examples/appUpload.R man/BoxMainPlotControlsUI.Rd man/IQRPlotControlsUI.Rd man/actionButton.Rd man/addDataCols.Rd man/addID.Rd man/add_title_pos.Rd man/all2all.Rd man/all2allControlsUI.Rd man/applyFilters.Rd man/applyFiltersNew.Rd man/applyFiltersToMergedComparison.Rd man/barMainPlotControlsUI.Rd man/batchEffectUI.Rd man/batchMethod.Rd man/changeClusterOrder.Rd man/clustFunParamsUI.Rd man/clusterData.Rd man/compareClust.Rd man/condSelectUI.Rd man/correctCombat.Rd man/correctHarman.Rd man/customColorsUI.Rd man/cutOffSelectionUI.Rd man/dataLCFUI.Rd man/dataLoadUI.Rd man/deServer.Rd man/deUI.Rd man/debrowserIQRplot.Rd man/debrowserall2all.Rd man/debrowserbarmainplot.Rd man/debrowserbatcheffect.Rd man/debrowserboxmainplot.Rd man/debrowsercondselect.Rd man/debrowserdataload.Rd man/debrowserdeanalysis.Rd man/debrowserdensityplot.Rd man/debrowserheatmap.Rd man/debrowserhistogram.Rd man/debrowserlowcountfilter.Rd man/debrowsermainplot.Rd man/debrowserpcaplot.Rd man/dendControlsUI.Rd man/densityPlotControlsUI.Rd man/distFunParamsUI.Rd man/drawPCAExplained.Rd man/fileTypes.Rd man/fileUploadBox.Rd man/generateTestData.Rd man/getAfterLoadMsg.Rd man/getAll2AllPlotUI.Rd man/getBSTableUI.Rd man/getBarMainPlot.Rd man/getBarMainPlotUI.Rd man/getBoxMainPlot.Rd man/getBoxMainPlotUI.Rd man/getColorShapeSelection.Rd man/getColors.Rd man/getCompSelection.Rd man/getCondMsg.Rd man/getConditionSelector.Rd man/getConditionSelectorFromMeta.Rd man/getCutOffSelection.Rd man/getDEAnalysisText.Rd man/getDEResultsUI.Rd man/getDataAssesmentText.Rd man/getDataForTables.Rd man/getDataPreparationText.Rd man/getDensityPlot.Rd man/getDensityPlotUI.Rd man/getDomains.Rd man/getDown.Rd man/getDownloadSection.Rd man/getEnrichDO.Rd man/getEnrichGO.Rd man/getEnrichKEGG.Rd man/getEntrezIds.Rd man/getEntrezTable.Rd man/getGOLeftMenu.Rd man/getGOPlots.Rd man/getGeneList.Rd man/getGeneSetData.Rd man/getGoPanel.Rd man/getHeatmapUI.Rd man/getHelpButton.Rd man/getHistogramUI.Rd man/getHoverPlots.Rd man/getIQRPlot.Rd man/getIQRPlotUI.Rd man/getIntroText.Rd man/getJSLine.Rd man/getKEGGModal.Rd man/getLeftMenu.Rd man/getLegendColors.Rd man/getLegendRadio.Rd man/getLegendSelect.Rd man/getLevelOrder.Rd man/getLoadingMsg.Rd man/getLogo.Rd man/getMainPanel.Rd man/getMainPlotUI.Rd man/getMainPlotsLeftMenu.Rd man/getMean.Rd man/getMergedComparison.Rd man/getMetaSelector.Rd man/getMethodDetails.Rd man/getMostVariedList.Rd man/getNormalizedMatrix.Rd man/getOrganism.Rd man/getOrganismBox.Rd man/getOrganismPathway.Rd man/getPCAPlotUI.Rd man/getPCAcontolUpdatesJS.Rd man/getPCAexplained.Rd man/getPCselection.Rd man/getPlotArea.Rd man/getProgramTitle.Rd man/getQAText.Rd man/getQCLeftMenu.Rd man/getQCPanel.Rd man/getSampleDetails.Rd man/getSampleNames.Rd man/getSamples.Rd man/getSearchData.Rd man/getSelHeat.Rd man/getSelectInputBox.Rd man/getSelectedCols.Rd man/getSelectedDatasetInput.Rd man/getShapeColor.Rd man/getStartPlotsMsg.Rd man/getStartupMsg.Rd man/getTabUpdateJS.Rd man/getTableDetails.Rd man/getTableModal.Rd man/getTableStyle.Rd man/getTextOnOff.Rd man/getToolTipText.Rd man/getUp.Rd man/getUpDown.Rd man/getVariationData.Rd man/get_conditions_given_selection.Rd man/get_user_info.Rd man/heatmapControlsUI.Rd man/heatmapJScode.Rd man/hideObj.Rd man/histogramControlsUI.Rd man/installpack.Rd man/kmeansControlsUI.Rd man/lcfMetRadio.Rd man/loadpack.Rd man/logSliderJScode.Rd man/mainPlotControlsUI.Rd man/mainScatterNew.Rd man/niceKmeans.Rd man/normalizationMethods.Rd man/palUI.Rd man/panel.cor.Rd man/panel.hist.Rd man/pcaPlotControlsUI.Rd man/plotData.Rd man/plotMarginsUI.Rd man/plotSizeMarginsUI.Rd man/plotSizeUI.Rd man/plot_pca.Rd man/prepDEOutput.Rd man/prepDataContainer.Rd man/prepGroup.Rd man/prepHeatData.Rd man/prepPCADat.Rd man/push.Rd man/removeCols.Rd man/round_vals.Rd man/runDE.Rd man/runDESeq2.Rd man/runEdgeR.Rd man/runHeatmap.Rd man/runHeatmap2.Rd man/runLimma.Rd man/run_pca.Rd man/selectConditions.Rd man/selectGroupInfo.Rd man/selectedInput.Rd man/sepRadio.Rd man/setFilterParams.Rd man/setFilterParamsNew.Rd man/showObj.Rd man/startDEBrowser.Rd man/textareaInput.Rd man/togglePanels.Rd man/whitelist.Rd tests/test-demo.R tests/test-deseq.R tests/test-null.R tests/test-ui.R vignettes/DEBrowser.R vignettes/DEBrowser.Rmd vignettes/DEBrowser.md