Man pages for nephantes/debrowser_bioconductor_release
Interactive Differential Expresion Analysis Browser

actionButtonButtons including Action Buttons and Event Buttons
addDataColsaddDataCols
addIDaddID
add_title_posadd_title_pos
all2allall2all
all2allControlsUIall2allControlsUI
applyFiltersapplyFilters
applyFiltersNewapplyFiltersNew
applyFiltersToMergedComparisonapplyFiltersToMergedComparison
barMainPlotControlsUIbarMainPlotControlsUI
batchEffectUIbatchEffectUI Creates a panel to coorect batch effect
batchMethodbatchMethod
BoxMainPlotControlsUIBoxMainPlotControlsUI
changeClusterOrderchangeClusterOrder
clusterDataclusterData
clustFunParamsUIclustFunParamsUI
compareClustcompareClust
condSelectUIcondSelectUI Creates a panel to select samples for each...
correctCombatCorrect Batch Effect using Combat in sva package
correctHarmanCorrect Batch Effect using Harman
customColorsUIcustomColorsUI
cutOffSelectionUIcutOffSelectionUI
dataLCFUIdataLCFUI Creates a panel to filter low count genes and...
dataLoadUIdataLoadUI
debrowserall2alldebrowserall2all
debrowserbarmainplotdebrowserbarmainplot
debrowserbatcheffectdebrowserbatcheffect
debrowserboxmainplotdebrowserboxmainplot
debrowsercondselectdebrowsercondselect
debrowserdataloaddebrowserdataload
debrowserdeanalysisdebrowserdeanalysis
debrowserdensityplotdebrowserdensityplot
debrowserheatmapdebrowserheatmap
debrowserhistogramdebrowserhistogram
debrowserIQRplotdebrowserIQRplot
debrowserlowcountfilterdebrowserlowcountfilter
debrowsermainplotdebrowsermainplot
debrowserpcaplotdebrowserpcaplot
dendControlsUIdendControlsUI
densityPlotControlsUIdensityPlotControlsUI
deServerdeServer
deUIdeUI
distFunParamsUIdistFunParamsUI
drawPCAExplainedCreates a more detailed plot using the PCA results from the...
fileTypesfileTypes
fileUploadBoxfileUploadBox
generateTestDatagenerateTestData
getAfterLoadMsggetAfterLoadMsg
getAll2AllPlotUIgetAll2AllPlotUI
getBarMainPlotgetBarMainPlot
getBarMainPlotUIgetBarMainPlotUI
getBoxMainPlotgetBoxMainPlot
getBoxMainPlotUIgetBoxMainPlotUI
getBSTableUIgetBSTableUI prepares a Modal to put a table
getColorsgetColors
getColorShapeSelectiongetColorShapeSelection
getCompSelectiongetCompSelection
getConditionSelectorgetConditionSelector
getConditionSelectorFromMetagetConditionSelectorFromMeta
get_conditions_given_selectionget_conditions_given_selection
getCondMsggetCondMsg
getCutOffSelectiongetCutOffSelection
getDataAssesmentTextgetDataAssesmentText DataAssesment text
getDataForTablesgetDataForTables get data to fill up tables tab
getDataPreparationTextgetDataPreparationText DataPreparation text
getDEAnalysisTextgetDEAnalysisText DEAnalysis text
getDensityPlotgetDensityPlot
getDensityPlotUIgetDensityPlotUI
getDEResultsUIgetDEResultsUI Creates a panel to visualize DE results
getDomainsgetDomains
getDowngetDown get down regulated data
getDownloadSectiongetDownloadSection
getEnrichDOgetEnrichDO
getEnrichGOgetEnrichGO
getEnrichKEGGgetEnrichKEGG
getEntrezIdsgetEntrezIds
getEntrezTablegetEntrezTable
getGeneListgetGeneList
getGeneSetDatagetGeneSetData
getGOLeftMenugetGOLeftMenu
getGoPanelgetGoPanel
getGOPlotsgetGOPlots
getHeatmapUIgetHeatmapUI
getHelpButtongetHelpButton prepares a helpbutton for to go to a specific...
getHistogramUIgetHistogramUI
getHoverPlotsgetHoverPlots
getIntroTextgetIntroText Intro text
getIQRPlotgetIQRPlot
getIQRPlotUIgetIQRPlotUI
getJSLinegetJSLine
getKEGGModalgetKEGGModal prepares a modal for KEGG plots
getLeftMenugetLeftMenu
getLegendColorsgetLegendColors
getLegendRadiogetLegendRadio
getLegendSelectgetLegendSelect
getLevelOrdergetLevelOrder
getLoadingMsggetLoadingMsg
getLogogetLogo
getMainPanelgetMainPanel
getMainPlotsLeftMenugetMainPlotsLeftMenu
getMainPlotUIgetMainPlotUI
getMeangetMean
getMergedComparisongetMergedComparison
getMetaSelectorgetMetaSelector
getMethodDetailsget the detail boxes after DE method selected
getMostVariedListgetMostVariedList
getNormalizedMatrixgetNormalizedMatrix
getOrganismgetOrganism
getOrganismBoxgetOrganismBox
getOrganismPathwaygetOrganismPathway
getPCAcontolUpdatesJSgetPCAcontolUpdatesJS in the prep menu we have two PCA plots...
getPCAexplainedgetPCAexplained
getPCAPlotUIgetPCAPlotUI
getPCselectiongetPCselection
getPlotAreagetPlotArea
getProgramTitlegetProgramTitle
getQATextgetQAText Some questions and answers
getQCLeftMenugetQCLeftMenu
getQCPanelgetQCPanel
getSampleDetailsgetSampleDetails
getSampleNamesgetSampleNames
getSamplesgetSamples
getSearchDatagetSearchData
getSelectedColsgetSelectedCols
getSelectedDatasetInputgetSelectedDatasetInput
getSelectInputBoxgetSelectInputBox
getSelHeatgetSelHeat
getShapeColorgetShapeColor
getStartPlotsMsggetStartPlotsMsg
getStartupMsggetStartupMsg
getTableDetailsgetTableDetails
getTableModalgetTableModal prepares table modal for KEGG
getTableStylegetTableStyle
getTabUpdateJSgetTabUpdateJS prepmenu tab and discovery menu tab updates
getTextOnOffgetTextOnOff
getToolTipTextgetToolTipText
getUpgetUp get up regulated data
getUpDowngetUpDown get up+down regulated data
get_user_infoGet the logged in user's email and other info
getVariationDatagetVariationData
heatmapControlsUIheatmapControlsUI
heatmapJScodeheatmapJScode
hideObjhideObj
histogramControlsUIhistogramControlsUI
installpackinstallpack
IQRPlotControlsUIIQRPlotControlsUI
kmeansControlsUIkmeansControlsUI
lcfMetRadiolcfMetRadio
loadpackloadpack
logSliderJScodelogSliderJScode
mainPlotControlsUImainPlotControlsUI
mainScatterNewmainScatterNew
niceKmeansniceKmeans
normalizationMethodsnormalizationMethods
palUIpalUI
panel.corpanel.cor
panel.histpanel.hist
pcaPlotControlsUIpcaPlotControlsUI
plotDataplotData
plotMarginsUIplotMarginsUI
plot_pcaplot_pca
plotSizeMarginsUIplotSizeMarginsUI
plotSizeUIplotSizeUI
prepDataContainerprepDataContainer
prepDEOutputprepDEOutput
prepGroupprepGroup
prepHeatDataprepHeatData
prepPCADatprepPCADat
pushpush
removeColsremoveCols
round_valsround_vals
runDErunDE
runDESeq2runDESeq2
runEdgeRrunEdgeR
runHeatmaprunHeatmap
runHeatmap2runHeatmap2
runLimmarunLimma
run_pcarun_pca
selectConditionsselectConditions
selectedInputselectedInput
selectGroupInfoselectGroupInfo
sepRadiosepRadio
setFilterParamssetFilterParams
setFilterParamsNewsetFilterParamsNew
showObjshowObj
startDEBrowserstartDEBrowser
textareaInputtextareaInput
togglePanelstogglePanels
whitelistWhitelist check
nephantes/debrowser_bioconductor_release documentation built on Aug. 3, 2018, 9:21 a.m.