gMCP: Graph Based Multiple Comparison Procedures

Functions and a graphical user interface for graphical described multiple test procedures.

AuthorKornelius Rohmeyer [aut, cre], Florian Klinglmueller [aut]
Date of publication2015-08-31 14:30:03
MaintainerKornelius Rohmeyer <rohmeyer@small-projects.de>
LicenseGPL (>= 2)
Version0.8-10
http://gsrmtp.r-forge.r-project.org/

View on CRAN

Man pages

bdiagNA: Create a Block Diagonal Matrix with NA outside the diagonal

bonferroni.test: Weighted Bonferroni-test

bonferroni.trimmed.simes.test: Trimmed Simes test for intersections of two hypotheses and...

calcPower: Calculate power values

confint: Simultaneous confidence intervals for sequentially rejective...

corMatWizard: Graphical User Interface for the creation of correlation...

doInterim: EXPERIMENTAL: Evaluate conditional errors at interim for a...

entangled: Class entangledMCP

exampleGraphs: Functions that create different example graphs

extractPower: Calculate power values

generateBounds: generateBounds

generatePvals: generatePvals

generateTest: generateTest

generateWeights: generateWeights

getJavaInfo: Get Memory and Runtime Info from JVM

gMCP: Graph based Multiple Comparison Procedures

gMCP.extended: Graph based Multiple Comparison Procedures

gMCP-package: Graphical described Multiple Comparison Procedures

gMCPReport: Automatic Generation of gMCP Reports

gMCPResult: Class gMCPResult

gPADInterim: Class gPADInterim

graph2latex: Graph2LaTeX

graphAnalysis: Analysis of a gMCP-Graph

graphGUI: Graphical User Interface for graphical described multiple...

graphMCP: Class graphMCP

graphTest: Multiple testing using graphs

hydroquinone: Hydroquinone Mutagenicity Assay

joinGraphs: Joins two graphMCP objects

matrix2graph: Matrix2Graph and Graph2Matrix

parametric.test: Weighted parametric test

placeNodes: Placement of graph nodes

plotSimCI: Plot confidence intervals

rejectNode: Rejects a node/hypothesis and updates the graph accordingly.

replaceVariables: Replaces variables in a general graph with specified numeric...

rqmvnorm: Random sample from the multivariate normal distribution

sampSize: Sample size calculations

sampSizeCore: Function for sample size calculation

secondStageTest: EXPERIMENTAL: Construct a valid level alpha test for the...

simes.on.subsets.test: Simes on subsets, otherwise Bonferroni

simes.test: Weighted Simes test

simvastatin: Simvastatin and Colesevelam Treatment in Patients with...

subgraph: Get a subgraph

substituteEps: Substitute Epsilon

unitTestsGMCP: Run the R unit (and optional the JUnit) test suite for gMCP

weighted.test.functions: Weighted Test Functions for use with gMCP

Files in this package

gMCP
gMCP/TODO
gMCP/inst
gMCP/inst/References.html
gMCP/inst/CITATION
gMCP/inst/java
gMCP/inst/java/gsrmtp.jar
gMCP/inst/doc
gMCP/inst/doc/AQuickStart.Rnw
gMCP/inst/doc/parametric.Rnw
gMCP/inst/doc/gMCP.R
gMCP/inst/doc/gMCP.Rnw
gMCP/inst/doc/gMCP.pdf
gMCP/inst/doc/parametric.pdf
gMCP/inst/doc/parametric.R
gMCP/inst/doc/AQuickStart.pdf
gMCP/inst/doc/AQuickStart.R
gMCP/inst/unitTests
gMCP/inst/unitTests/runit.entangled.R
gMCP/inst/unitTests/runit.randomGraph.R
gMCP/inst/unitTests/runit.LaTeX.R
gMCP/inst/unitTests/runit.misc.R
gMCP/inst/unitTests/runit.fastgMCP.R
gMCP/inst/unitTests/runit.adjPValues.R
gMCP/inst/unitTests/runit.gMCP.R
gMCP/inst/unitTests/runit.power.R
gMCP/inst/unitTests/runit.gMCP.extended.R
gMCP/inst/unitTests/runit.sampSize.R
gMCP/inst/unitTests/runit.correlation.R
gMCP/inst/unitTests/runit.graphGMCP.R
gMCP/inst/unitTests/runit.cover.everything.R
gMCP/tests
gMCP/tests/doRUnit.R
gMCP/src
gMCP/src/mcp.c
gMCP/src/gMCP.c
gMCP/NAMESPACE
gMCP/INSTALL
gMCP/NEWS
gMCP/data
gMCP/data/hydroquinone.rda
gMCP/data/simvastatin.rda
gMCP/R
gMCP/R/subVariables.R gMCP/R/onLoad.R gMCP/R/gACT-internal.R gMCP/R/gMCP.R gMCP/R/generateBounds.R gMCP/R/startGUIs.R gMCP/R/closure.R gMCP/R/exampleGraphs.R gMCP/R/analysis.R gMCP/R/graph2latex.R gMCP/R/powerPlot.R gMCP/R/generateTest.R gMCP/R/gMCP.extended.R gMCP/R/rqmvnorm.R gMCP/R/modifyGraphs.R gMCP/R/helperGUI.R gMCP/R/graphMCP.R gMCP/R/graphTest.R gMCP/R/doRUnitTests.R gMCP/R/sampSize.R gMCP/R/misc.R gMCP/R/plotCI.R gMCP/R/generateWeights.R gMCP/R/matrix2graph.R gMCP/R/generatePvals.R gMCP/R/convertFromOldClassDefinition.R gMCP/R/gPAD.R gMCP/R/calcPower.R
gMCP/vignettes
gMCP/vignettes/AQuickStart.Rnw
gMCP/vignettes/parametric.Rnw
gMCP/vignettes/pictures
gMCP/vignettes/pictures/StartTesting.png
gMCP/vignettes/pictures/edge.png
gMCP/vignettes/pictures/createCM1.png
gMCP/vignettes/pictures/zoom_in.png
gMCP/vignettes/pictures/GeneratedRCode.png
gMCP/vignettes/pictures/udpf.png
gMCP/vignettes/pictures/rjavaicon64.png
gMCP/vignettes/pictures/FullFeaturedGUI.png
gMCP/vignettes/pictures/docxExport.png
gMCP/vignettes/pictures/filemenu.png
gMCP/vignettes/pictures/PowerResults.png
gMCP/vignettes/pictures/confint2.png
gMCP/vignettes/pictures/udpf2.png
gMCP/vignettes/pictures/CIDialog.png
gMCP/vignettes/pictures/vertex.png
gMCP/vignettes/pictures/variableEditor.png
gMCP/vignettes/pictures/entangled.png
gMCP/vignettes/pictures/ImportTextLibreOffice.png
gMCP/vignettes/pictures/exportPNG.png
gMCP/vignettes/pictures/power_requirements.png
gMCP/vignettes/pictures/adjPval_b.png
gMCP/vignettes/pictures/correlated.png
gMCP/vignettes/pictures/confint2_b.png
gMCP/vignettes/pictures/example.png
gMCP/vignettes/pictures/zoom_out.png
gMCP/vignettes/pictures/arm.png
gMCP/vignettes/pictures/corMat2.png
gMCP/vignettes/pictures/Reset.png
gMCP/vignettes/pictures/adjPval.png
gMCP/vignettes/pictures/createCM3.png
gMCP/vignettes/gMCP.Rnw
gMCP/vignettes/pvals.RData
gMCP/vignettes/literatur.bib
gMCP/vignettes/myIndex.ist
gMCP/MD5
gMCP/java
gMCP/java/tests
gMCP/java/tests/DataTableTest.java
gMCP/java/tests/ToolTest.java
gMCP/java/tests/EdgeTest.java
gMCP/java/tests/RControlTest.java
gMCP/java/tests/LoadSaveTest.java
gMCP/java/tests/NetListTest.java
gMCP/java/tests/PowerTest.java
gMCP/java/tests/RJavaUTF.java
gMCP/java/tests/InteractionTest.java
gMCP/java/tests/TestSuite.java
gMCP/java/tests/TexFormulaTest.java
gMCP/java/tests/NodeTest.java
gMCP/java/tests/PPanelTest.java
gMCP/java/tests/OptionPaneTest.java
gMCP/java/org
gMCP/java/org/apache
gMCP/java/org/apache/poi
gMCP/java/org/apache/poi/xwpf
gMCP/java/org/apache/poi/xwpf/usermodel
gMCP/java/org/apache/poi/xwpf/usermodel/XWPFRun.java
gMCP/java/org/mutoss
gMCP/java/org/mutoss/gui
gMCP/java/org/mutoss/gui/TransferableImage.java
gMCP/java/org/mutoss/gui/JavaGD.java
gMCP/java/org/mutoss/gui/JavaGDPanel.java
gMCP/java/org/af
gMCP/java/org/af/gMCP
gMCP/java/org/af/gMCP/tests
gMCP/java/org/af/gMCP/tests/CircleTest.java
gMCP/java/org/af/gMCP/tests/ThreadExceptionTest.java
gMCP/java/org/af/gMCP/tests/CircleTest3Points.java
gMCP/java/org/af/gMCP/tests/TestImportExport.java
gMCP/java/org/af/gMCP/tests/FormatTest.java
gMCP/java/org/af/gMCP/tests/TeXFormulaTest.java
gMCP/java/org/af/gMCP/config
gMCP/java/org/af/gMCP/config/JavaConfig.java
gMCP/java/org/af/gMCP/config/Configuration.java
gMCP/java/org/af/gMCP/config/PlotConfig.java
gMCP/java/org/af/gMCP/config/GeneralConfig.java
gMCP/java/org/af/gMCP/config/SpecificConfig.java
gMCP/java/org/af/gMCP/config/VersionComparator.java
gMCP/java/org/af/gMCP/poi
gMCP/java/org/af/gMCP/poi/GraphDocXWriter.java
gMCP/java/org/af/gMCP/gui
gMCP/java/org/af/gMCP/gui/pdf
gMCP/java/org/af/gMCP/gui/pdf/PDFViewerStarter.java
gMCP/java/org/af/gMCP/gui/pdf/Step.java
gMCP/java/org/af/gMCP/gui/pdf/PDFGenerator.java
gMCP/java/org/af/gMCP/gui/pdf/Plot.java
gMCP/java/org/af/gMCP/gui/pdf/Result.java
gMCP/java/org/af/gMCP/gui/power
gMCP/java/org/af/gMCP/gui/power/Arm.java
gMCP/java/org/af/gMCP/gui/power/PowerResultDialog.java
gMCP/java/org/af/gMCP/gui/power/PopulationDialog.java
gMCP/java/org/af/gMCP/gui/power/SampleSizeDialog.java
gMCP/java/org/af/gMCP/gui/power/SampSizeResultTableModel.java
gMCP/java/org/af/gMCP/gui/power/KoutofNDialog.java
gMCP/java/org/af/gMCP/gui/power/EndpointDialog.java
gMCP/java/org/af/gMCP/gui/power/VariablePanel.java
gMCP/java/org/af/gMCP/gui/power/NCPCalculatorDialog.java
gMCP/java/org/af/gMCP/gui/power/XMLIO.java
gMCP/java/org/af/gMCP/gui/power/CVPanel.java
gMCP/java/org/af/gMCP/gui/power/ScenarioPanel2.java
gMCP/java/org/af/gMCP/gui/power/PDialog.java
gMCP/java/org/af/gMCP/gui/power/Scenario2.java
gMCP/java/org/af/gMCP/gui/power/UserDefinedDialog.java
gMCP/java/org/af/gMCP/gui/power/Scenario.java
gMCP/java/org/af/gMCP/gui/power/RandomizationPanel.java
gMCP/java/org/af/gMCP/gui/power/ScenarioPanel.java
gMCP/java/org/af/gMCP/gui/power/PowerReq.java
gMCP/java/org/af/gMCP/gui/power/PowerResultTableModel.java
gMCP/java/org/af/gMCP/gui/power/MarginalPowerPanel.java
gMCP/java/org/af/gMCP/gui/power/UserDefinedPanel.java
gMCP/java/org/af/gMCP/gui/power/PowerDialog.java
gMCP/java/org/af/gMCP/gui/power/SettingsToXML.java
gMCP/java/org/af/gMCP/gui/power/PowerReqPanel.java
gMCP/java/org/af/gMCP/gui/power/ScenarioPanelInterface.java
gMCP/java/org/af/gMCP/gui/power/HorizontalButtonPane.java
gMCP/java/org/af/gMCP/gui/power/NCPRequestor.java
gMCP/java/org/af/gMCP/gui/ReproducableLog.java
gMCP/java/org/af/gMCP/gui/AboutDialog.java
gMCP/java/org/af/gMCP/gui/DebugTextConsole.java
gMCP/java/org/af/gMCP/gui/ErrorDialogChooseLevel.java
gMCP/java/org/af/gMCP/gui/graph
gMCP/java/org/af/gMCP/gui/graph/PPanel.java
gMCP/java/org/af/gMCP/gui/graph/NetListPanel.java
gMCP/java/org/af/gMCP/gui/graph/PView.java
gMCP/java/org/af/gMCP/gui/graph/DView.java
gMCP/java/org/af/gMCP/gui/graph/annotations
gMCP/java/org/af/gMCP/gui/graph/annotations/Legend.java
gMCP/java/org/af/gMCP/gui/graph/annotations/Rectangle.java
gMCP/java/org/af/gMCP/gui/graph/annotations/Note.java
gMCP/java/org/af/gMCP/gui/graph/annotations/Annotation.java
gMCP/java/org/af/gMCP/gui/graph/annotations/Ellipse.java
gMCP/java/org/af/gMCP/gui/graph/annotations/Text.java
gMCP/java/org/af/gMCP/gui/graph/annotations/AnnotationPanel.java
gMCP/java/org/af/gMCP/gui/graph/annotations/Line.java
gMCP/java/org/af/gMCP/gui/graph/annotations/package-info.java
gMCP/java/org/af/gMCP/gui/graph/images
gMCP/java/org/af/gMCP/gui/graph/images/StartTesting.png
gMCP/java/org/af/gMCP/gui/graph/images/edge.png
gMCP/java/org/af/gMCP/gui/graph/images/zoom_in.png
gMCP/java/org/af/gMCP/gui/graph/images/questionmark.png
gMCP/java/org/af/gMCP/gui/graph/images/rjavaicon64.png
gMCP/java/org/af/gMCP/gui/graph/images/matrix.png
gMCP/java/org/af/gMCP/gui/graph/images/questionmark32.png
gMCP/java/org/af/gMCP/gui/graph/images/back.png
gMCP/java/org/af/gMCP/gui/graph/images/confint2.png
gMCP/java/org/af/gMCP/gui/graph/images/update24.png
gMCP/java/org/af/gMCP/gui/graph/images/vertex.png
gMCP/java/org/af/gMCP/gui/graph/images/update.png
gMCP/java/org/af/gMCP/gui/graph/images/zoom_out.png
gMCP/java/org/af/gMCP/gui/graph/images/questionmark64.png
gMCP/java/org/af/gMCP/gui/graph/images/Reset.png
gMCP/java/org/af/gMCP/gui/graph/images/adjPval.png
gMCP/java/org/af/gMCP/gui/graph/images/latex.png
gMCP/java/org/af/gMCP/gui/graph/EdgeWeight.java
gMCP/java/org/af/gMCP/gui/graph/GraphView.java
gMCP/java/org/af/gMCP/gui/graph/GraphMCP.java
gMCP/java/org/af/gMCP/gui/graph/UpdateNode.java
gMCP/java/org/af/gMCP/gui/graph/PrintableObject.java
gMCP/java/org/af/gMCP/gui/graph/UpdateEdge.java
gMCP/java/org/af/gMCP/gui/graph/Edge.java
gMCP/java/org/af/gMCP/gui/graph/NetList.java
gMCP/java/org/af/gMCP/gui/graph/NodeListener.java
gMCP/java/org/af/gMCP/gui/graph/WrongInputException.java
gMCP/java/org/af/gMCP/gui/graph/Physics.java
gMCP/java/org/af/gMCP/gui/graph/NetListPopUpMenu.java
gMCP/java/org/af/gMCP/gui/graph/GraphPanel.java
gMCP/java/org/af/gMCP/gui/graph/SubFamily.java
gMCP/java/org/af/gMCP/gui/graph/Node.java
gMCP/java/org/af/gMCP/gui/graph/LaTeXTool.java
gMCP/java/org/af/gMCP/gui/graph/NetListSelectionPopUpMenu.java
gMCP/java/org/af/gMCP/gui/CreateGraphGUI.java
gMCP/java/org/af/gMCP/gui/options
gMCP/java/org/af/gMCP/gui/options/SetPropertiesException.java
gMCP/java/org/af/gMCP/gui/options/SetLookAndFeelException.java
gMCP/java/org/af/gMCP/gui/options/OptionsDialog.java
gMCP/java/org/af/gMCP/gui/options/GeneralPanel.java
gMCP/java/org/af/gMCP/gui/options/MiscPanel.java
gMCP/java/org/af/gMCP/gui/options/OptionsPanel.java
gMCP/java/org/af/gMCP/gui/options/NumericPanel.java
gMCP/java/org/af/gMCP/gui/MenuBarMGraph.java
gMCP/java/org/af/gMCP/gui/commons-logging-verbose.properties
gMCP/java/org/af/gMCP/gui/commons-logging.properties
gMCP/java/org/af/gMCP/gui/JSplitPaneBugWorkAround.java
gMCP/java/org/af/gMCP/gui/ErrorDialogGMCP.java
gMCP/java/org/af/gMCP/gui/datatable
gMCP/java/org/af/gMCP/gui/datatable/DataFramePanel.java
gMCP/java/org/af/gMCP/gui/datatable/DataTableModel.java
gMCP/java/org/af/gMCP/gui/datatable/RowModel.java
gMCP/java/org/af/gMCP/gui/datatable/EpsilonTableCellRenderer.java
gMCP/java/org/af/gMCP/gui/datatable/CellEditorE.java
gMCP/java/org/af/gMCP/gui/datatable/SingleDataFramePanel.java
gMCP/java/org/af/gMCP/gui/datatable/DataTable.java
gMCP/java/org/af/gMCP/gui/datatable/RDataFrameRef.java
gMCP/java/org/af/gMCP/gui/ErrorDialogChooseLevelBase.java
gMCP/java/org/af/gMCP/gui/contrasts
gMCP/java/org/af/gMCP/gui/contrasts/ContrastTableModel.java
gMCP/java/org/af/gMCP/gui/contrasts/VarSelectBox.java
gMCP/java/org/af/gMCP/gui/contrasts/ROptionBox.java
gMCP/java/org/af/gMCP/gui/contrasts/GroupingBox.java
gMCP/java/org/af/gMCP/gui/contrasts/LevelOrderListener.java
gMCP/java/org/af/gMCP/gui/contrasts/StatMethodDialog.java
gMCP/java/org/af/gMCP/gui/contrasts/AnalysisDialogListenerFactory.java
gMCP/java/org/af/gMCP/gui/contrasts/GroupingListener.java
gMCP/java/org/af/gMCP/gui/contrasts/ContrastDialog2.java
gMCP/java/org/af/gMCP/gui/contrasts/LevelOrderSL.java
gMCP/java/org/af/gMCP/gui/contrasts/ContrastColorRenderer.java
gMCP/java/org/af/gMCP/gui/contrasts/AnalysisDialogFactory.java
gMCP/java/org/af/gMCP/gui/contrasts/ContrastTable.java
gMCP/java/org/af/gMCP/gui/contrasts/LevelSelectBox.java
gMCP/java/org/af/gMCP/gui/dialogs
gMCP/java/org/af/gMCP/gui/dialogs/GroupDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/PowerOptionsPanel.java
gMCP/java/org/af/gMCP/gui/dialogs/MatrixCreationDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/RejectedDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/RearrangeNodesDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/PowerParameterPanel.java
gMCP/java/org/af/gMCP/gui/dialogs/VariableDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/InfoDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/VariableNameDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/GraphSendToArchiveDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/AlternativesDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/AdjustedPValueDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/TellAboutOnlineUpate.java
gMCP/java/org/af/gMCP/gui/dialogs/ColorChooseDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/DialogConfIntEstVar.java
gMCP/java/org/af/gMCP/gui/dialogs/PowersettingsToXML.java
gMCP/java/org/af/gMCP/gui/dialogs/ParameterDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/NewVersionDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/TextFileViewer.java
gMCP/java/org/af/gMCP/gui/dialogs/RObjectLoadingDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/ImageExportDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/LoadGraphFromArchiveDialog.java
gMCP/java/org/af/gMCP/gui/dialogs/ImagePanel.java
gMCP/java/org/af/gMCP/gui/dialogs/GraphSaveDialog.java
gMCP/java/org/af/gMCP/gui/RCallServicesREngineWrapper.java
gMCP/java/org/af/gMCP/gui/RControl.java
gMCP/java/build.xml
gMCP/build
gMCP/build/vignette.rds
gMCP/DESCRIPTION
gMCP/man
gMCP/man/plotSimCI.Rd gMCP/man/substituteEps.Rd gMCP/man/placeNodes.Rd gMCP/man/gPADInterim.Rd gMCP/man/gMCPResult.Rd gMCP/man/graphGUI.Rd gMCP/man/sampSize.Rd gMCP/man/exampleGraphs.Rd gMCP/man/subgraph.Rd gMCP/man/gMCP-package.Rd gMCP/man/entangled.Rd gMCP/man/matrix2graph.Rd gMCP/man/hydroquinone.Rd gMCP/man/generateBounds.Rd gMCP/man/gMCPReport.Rd gMCP/man/bdiagNA.Rd gMCP/man/rqmvnorm.Rd gMCP/man/graphTest.Rd gMCP/man/weighted.test.functions.Rd gMCP/man/confint.Rd gMCP/man/simvastatin.Rd gMCP/man/generateTest.Rd gMCP/man/graph2latex.Rd gMCP/man/gMCP.Rd gMCP/man/rejectNode.Rd gMCP/man/gMCP.extended.Rd gMCP/man/bonferroni.test.Rd gMCP/man/secondStageTest.Rd gMCP/man/extractPower.Rd gMCP/man/joinGraphs.Rd gMCP/man/graphAnalysis.Rd gMCP/man/simes.on.subsets.test.Rd gMCP/man/parametric.test.Rd gMCP/man/bonferroni.trimmed.simes.test.Rd gMCP/man/sampSizeCore.Rd gMCP/man/generateWeights.Rd gMCP/man/generatePvals.Rd gMCP/man/unitTestsGMCP.Rd gMCP/man/doInterim.Rd gMCP/man/getJavaInfo.Rd gMCP/man/graphMCP.Rd gMCP/man/simes.test.Rd gMCP/man/corMatWizard.Rd gMCP/man/replaceVariables.Rd gMCP/man/calcPower.Rd
gMCP/.Rinstignore

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