Files in pneuvial/sanssouci

Post Hoc Multiple Testing Inference

.Rbuildignore

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.github/workflows/pkgdown.yaml

.gitignore

DESCRIPTION

NAMESPACE

NEWS

R/RcppExports.R R/SansSouci-class.R R/SansSouciStruct-class.R R/calibration.R R/confidenceEnvelope.R R/gaussianSamples.R R/gaussianTestStatistics.R R/getFactorModelCovarianceMatrix.R R/partialColSort.R R/posthoc-bounds.R R/posthocBySimes.R R/reference-families.R R/rowBinomialTests.R R/rowPearsonCorrelationTests.R R/rowWelchTests.R R/rowWilcoxonTests.R R/rowZTests.R R/sanssouci.R R/simulateFactorModelNullsFromSingularValuesAndLoadings.R R/simulateGaussianEquiCorrelatedNulls.R R/simulateGaussianNullsFromFactorModel.R R/simulateGaussianNullsFromSigma.R R/testByRandomization.R R/tree-functions.R R/tree-simulation-functions.R R/volcanoPlot.R

README-conf-curve-1.png

README-volcano-plot-1.png

README.Rmd README.md

_pkgdown.yml

codecov.yml

inst/.gitignore

inst/BNR/JFWERcontrol/00.setup.R inst/BNR/JFWERcontrol/01.runSimulations.R inst/BNR/JFWERcontrol/02.tidyResults.R inst/BNR/JFWERcontrol/03.plotJFWER.R inst/BNR/JFWERcontrol/04.plotJFWER-paper.R inst/BNR/averagePower/00.setup.R inst/BNR/averagePower/01.runSimulations.R inst/BNR/averagePower/03.plotPowerVsJFWER.R inst/BNR/detectionPower/00.setup.R inst/BNR/detectionPower/01.runSimulations.R inst/BNR/detectionPower/03.plotPowerVsJFWER.R inst/BNR/lambda-calibration/00_setup.R inst/BNR/lambda-calibration/01_lambda-calibration.R inst/BNR/lambda-calibration/02_plot_lambda-vs-rho.R inst/BNR/power/00.setup.R inst/BNR/power/01.runSimulations.R inst/BNR/power/03.plotPowerVsJFWER.R inst/BNR/power/03.tidyResults.R inst/BNR/power/03b.plotPowerVsJFWER,indep.R inst/BNR/testStepDown.R

inst/CITATION

inst/DBNR/envelopes-hybrid/.gitignore

inst/DBNR/envelopes-hybrid/hybrid_00_setup.R inst/DBNR/envelopes-hybrid/hybrid_01_run-simulations.R inst/DBNR/envelopes-hybrid/hybrid_02_read-results.R inst/DBNR/envelopes-hybrid/hybrid_03_ggplot.R inst/DBNR/envelopes-hybrid/hybrid_04_ggplot-paper.R inst/DBNR/envelopes-hybrid/hybrid_run_one_simu.hulk.R inst/DBNR/envelopes-hybrid/hybrid_simu.hulk.R inst/DBNR/envelopes-hybrid/hybrid_wrapper.R inst/DBNR/envelopes-hybrid/script_refining_benefit.R inst/DBNR/envelopes-hybrid/script_test_Vstar_improv.R inst/DBNR/envelopes-hybrid/script_test_completion.R inst/DBNR/envelopes-hybrid/script_test_curve_fast.R inst/DBNR/envelopes-hybrid/script_test_delete_gaps.R inst/DBNR/envelopes-hybrid/script_test_pruning.R inst/DBNR/envelopes/00_setup.R inst/DBNR/envelopes/01_run-simulations.R inst/DBNR/envelopes/02_read-results.R inst/DBNR/envelopes/03_ggplot.R inst/DBNR/envelopes/04_ggplot-paper.R inst/DBNR/envelopes/run_one_simu.hulk.R inst/DBNR/envelopes/simu.hulk.R inst/ECN/figures/01_setup.R inst/ECN/figures/02_figure-02.R inst/ECN/figures/03_figure-03.R inst/ECN/numerical-experiments/00_utils.R inst/ECN/numerical-experiments/01_setup.R inst/ECN/numerical-experiments/02_run_differential-expression.R inst/ECN/numerical-experiments/03_plot_JER-control-results.R inst/shiny-examples/guillermo-phd-defense/shiny.R inst/shiny-examples/ordered-hypotheses/app.R inst/shiny-examples/volcano-plot/GSEABenchmarkeR/export-data.R inst/shiny-examples/volcano-plot/function.R inst/shiny-examples/volcano-plot/server.R inst/shiny-examples/volcano-plot/ui.R

inst/shiny-examples/volcano-plot/www/style.css

inst/system/create-test-data-for-python-implementation.R inst/system/create-volcano-plot-data.R inst/system/speed_rowWelchTests.R inst/system/speed_rowWilcoxonTests.R

inst/testdata/issue-94_y.rds

man/SansSouci-methods.Rd man/SansSouci.Rd man/SansSouciDyadic.Rd man/SansSouciSim.Rd man/SansSouciStruct-methods.Rd man/SansSouciStruct.Rd man/V.star.Rd man/all-generics.Rd man/calibrate.Rd man/confCurveFromFam.Rd man/curve.V.star.forest.Rd man/curveMaxFP.Rd man/curveMaxFP_alternatives.Rd man/delete.gaps.Rd man/dyadic.Rd

man/figures/README-conf-curve-1.png

man/figures/README-volcano-plot-1.png

man/fit.SansSouci.Rd man/fit.SansSouciStruct.Rd man/forest.completion.Rd man/formatBounds.Rd man/gauss_bloc.Rd man/gaussianSamples.Rd man/gaussianTestStatistics.Rd man/gen.mu.leaves.Rd man/gen.mu.noleaves.Rd man/gen.p.values.Rd man/get_perm.Rd man/get_pivotal_stat.Rd man/maxFDP.Rd man/maxFP.Rd man/minTDP.Rd man/minTP.Rd man/nb.elements.Rd man/plot.SansSouci.Rd man/plotConfCurve.Rd man/posthocBySimes.Rd man/predict.SansSouci.Rd man/pruning.Rd man/reexports.Rd man/reference-families.Rd man/rowBinomialTests.Rd man/rowPearsonCorrelationTests.Rd man/rowWelchTests.Rd man/rowWilcoxonTests.Rd man/rowZTests.Rd man/testByRandomization.Rd man/volcanoPlot.Rd man/volcanoPlot.numeric.Rd man/zeta.Rd man/zetas.tree.Rd

src/Makevars

src/Makevars.win

src/RcppExports.cpp

src/colSort.cpp

src/partialColSortDesc.cpp

src/posthocBySimes.cpp

src/testByRandomization.cpp

tests/testthat.R tests/testthat/test_SansSouci-class.R tests/testthat/test_SansSouciStruct-class.R tests/testthat/test_calibration.R tests/testthat/test_confidenceEnvelope.R tests/testthat/test_gaussianSamples.R tests/testthat/test_gaussianTestStatistics.R tests/testthat/test_posthoc-bounds.R tests/testthat/test_reference-families.R tests/testthat/test_rowBinomialTests.R tests/testthat/test_rowPearsonCorrelationTests.R tests/testthat/test_rowWelchTests.R tests/testthat/test_rowWilcoxonTests.R tests/testthat/test_simes.R tests/testthat/test_testByRandomization.R tests/testthat/test_testStatGeneration.R tests/testthat/test_tree-functions.R tests/testthat/test_volcanoPlot.R vignettes/CopyOfconfidenceCurves_localized.Rmd

vignettes/DBNR_graph-simu.png

vignettes/IIDEA.Rmd vignettes/Simes_equi-correlation.Rmd vignettes/confidenceCurves_localized.Rmd

vignettes/img/IIDEA_GO-0002576.png

vignettes/img/IIDEA_overview.png

vignettes/img/IIDEA_post-hoc-table.png

vignettes/img/IIDEA_volcano-plot.png

vignettes/jointErrorRateCalibration_simulations.Rmd vignettes/post-hoc_differential-expression.Rmd vignettes/post-hoc_differential-expression_RNAseq.Rmd vignettes/post-hoc_fMRI.Rmd

vignettes/sanssouci.bib

pneuvial/sanssouci documentation built on June 29, 2024, 9:49 a.m.