mutoss: Unified multiple testing procedures

The Mutoss package and accompanying mutossGUI package are designed to ease the application and comparison of multiple hypothesis testing procedures.

AuthorMuToss Coding Team (Berlin 2010), Gilles Blanchard, Thorsten Dickhaus, Niklas Hack, Frank Konietschke, Kornelius Rohmeyer, Jonathan Rosenblatt, Marsel Scheer, Wiebke Werft
Date of publication2013-02-10 16:03:37
MaintainerKornelius Rohmeyer <rohmeyer@small-projects.de>
LicenseGPL
Version0.1-8
http://mutoss.r-forge.r-project.org/

View on R-Forge

Man pages

ABH_pi0_est: Lowest Slope Line (LSL) method of Hochberg and Benjamini for...

adaptiveBH: Benjamini-Hochberg (2000) adaptive linear step-up procedure

adaptiveSTS: Storey-Taylor-Siegmund (2004) adaptive step-up procedure

adjPValuesPlot: A function plotting adjusted p-values...

aorc: Step-up-down test based on the asymptotically optimal...

augmentation: Wrapper function to the augmentation methods of the multtest...

BH: Benjamini-Hochberg (1995) linear step-up procedure

BL: Benjamini-Liu (1999) step-down procedure

BlaRoq: Blanchard-Roquain (2008) step-up Procedure for arbitrary...

bonferroni: Bonferroni correction...

BR_pi0_est: Estimate of pi0 using the one-step Blanchard-Roquain...

BY: Benjamini-Yekutieli (2001) step-up procedure

calculateBetaAdjustment: Calculating the beta adjustment factor for the asymptotically...

compareMutoss: Functions for comparing outputs of different procedures.

ErrorControl: Class ErrorControl

fisher22_fast: Fisher (2x2) table association analysis for calculating one...

fisher22.marginal: Fisher (2x2) table association analysis for calculating all...

fisher23_fast: Fisher-type (2x3) table association analysis for calculating...

fisher23.marginal: Fisher-type (2x3) table association analysis for calculating...

ftest.marginal: Marginal F test

gao: Xin Gao's non-parametric multiple test procedure is applied...

gatherParameters: Extracts the parameters from the simulation()-Object

gatherStatistics: Gathering statistics from simulation()-Object

hochberg: Hochberg (1988) step-up procedure

holm: Holm's (1979) step-down-procedure

hommel: Hommel's (1988) step-up-procedure

indepBR: Blanchard-Roquain (2009) 1-stage adaptive step-up

jointCDF.orderedUnif: Joint cumulative distribution function of order statistics of...

linearStepUp: Linear Step Up Service Function...

multcomp.wrapper: Simultaneous confidence intervals for arbitrary parametric...

multiple.down: Benjamini-Krieger-Yekutieli (2006) Multi-Stage Step-Down

multiple.down.adjust: A service function used by multiple...

mu.test.class: Test for compatible classes for comparison...

mu.test.name: Tests if all hypotheses have the same names.

mu.test.rates: Tests that different procedures used the same error rates.

mu.test.same.data: Tests if the same pvalues were used by different procedures.

mu.test.type: Tests that different procedures use the same error types.

Mutoss: Class Mutoss

mutoss.apply: Applies a function to a Mutoss object.

MutossMethod: Class MutossMethod

mutoss.models: Mutoss Models

mutoss.plotCI: mutoss.plotCI

notterman: Notterman data set

nparcomp: Simultaneous confidence intervals for relative contrast...

nparcomp.wrapper: Simultaneous confidence intervals for relative contrast...

onesamp.marginal: Marginal one sample test

oracleBH: Bejamini-Hochberg (2000) oracle linear step-up Procedure...

paired.marginal: Marginal paired two sample test

printRejected: Internal MuTossProjekt-Function

pval2locfdr: Strimmer et al.'s fdrtool-based local fdr

pval2qval: Strimmer et al.'s fdrtool-based q-values

pValuesPlot: A function plotting p-values...

Qvalue: Storey's (2001) q-value Procedure...

ranktruncated: Rank truncated p-Value procedure...

regwq: REGWQ - Ryan / Einot and Gabriel / Welsch test procedure...

reject: reject

requireLibrary: Tries to load a package.

rom: Rom's (1990) step-up-procedure.

SD: A general step-down procedure.

sidak: Sidak correction

SidakSD: Sidak-like (1987) step-down procedure

simulation: Simulation studies

snk: Student - Newman - Keuls rejective test procedure.

storey_pi0_est: Storey-Taylor-Siegmund estimation of pi0 (finite sample...

SU: A general step-up procedure.

SUD: A general step-up-down procedure.

TSBKY_pi0_est: Two-step estimation method of Benjamini, Krieger and...

tukey.wrapper: Tukey HSD test and simultaneous confidence intervals for all...

twosamp.marginal: Marginal two sample test

two.stage: A p-value procedure which controls the FDR for independent...

twostageBR: Blanchard-Roquain (2009) 2-stage adaptive step-up...

Files in this package

mutoss
mutoss/data
mutoss/data/notterman.grpLabel.rda
mutoss/data/notterman.rda
mutoss/data/T.Test.tumor.vs.normal.rda
mutoss/R
mutoss/R/mutoss.plotCI.R mutoss/R/Tukey.R mutoss/R/gao.R mutoss/R/MuTossObject.R mutoss/R/helperfunctions.R mutoss/R/localfdr.R mutoss/R/mutossApply.R mutoss/R/Augmentation.R mutoss/R/Rank_Truncated.R mutoss/R/REGWQ.R mutoss/R/testFunctionsForTheGUI.R mutoss/R/moreSUDprocedures.R mutoss/R/SUDProcedures.R mutoss/R/marginal.R mutoss/R/CompareObjects.R mutoss/R/wrapperFunctions.R mutoss/R/fisher.R mutoss/R/multtest.R mutoss/R/simulationList.R mutoss/R/SUD.R mutoss/R/pi0Est.R mutoss/R/onLoad.R mutoss/R/SNK.R mutoss/R/multcomp.R mutoss/R/nparcomp1.R mutoss/R/Hommel.R
mutoss/NAMESPACE
mutoss/tests
mutoss/tests/doRUnit.R
mutoss/inst
mutoss/inst/unitTests
mutoss/inst/unitTests/runit.example.R
mutoss/inst/doc
mutoss/inst/doc/simToolManual.pdf
mutoss/inst/doc/quickstart.pdf
mutoss/inst/doc/index.html
mutoss/inst/doc/quickstart.Rnw
mutoss/inst/doc/simToolVignette.pdf
mutoss/inst/doc/simToolManual.actuallyRnw
mutoss/inst/doc/simToolManual.Rnw
mutoss/DESCRIPTION
mutoss/man
mutoss/man/Qvalue.Rd mutoss/man/linearStepUp.Rd mutoss/man/mu.test.same.data.Rd mutoss/man/BL.Rd mutoss/man/ABH_pi0_est.Rd mutoss/man/multiple.down.Rd mutoss/man/printRejected.Rd mutoss/man/adaptiveBH.Rd mutoss/man/compareMutoss.Rd mutoss/man/twostageBR.Rd mutoss/man/tukey.wrapper.Rd mutoss/man/TSBKY_pi0_est.Rd mutoss/man/BlaRoq.Rd mutoss/man/notterman.Rd mutoss/man/SidakSD.Rd mutoss/man/SD.Rd mutoss/man/regwq.Rd mutoss/man/ErrorControl.Rd mutoss/man/calculateBetaAdjustment.Rd mutoss/man/storey_pi0_est.Rd mutoss/man/multcomp.wrapper.Rd mutoss/man/BH.Rd mutoss/man/hochberg.Rd mutoss/man/gao.Rd mutoss/man/adaptiveSTS.Rd mutoss/man/sidak.Rd mutoss/man/mutoss.apply.Rd mutoss/man/pval2qval.Rd mutoss/man/fisher23.marginal.Rd mutoss/man/fisher22.marginal.Rd mutoss/man/multiple.down.adjust.Rd mutoss/man/hommel.Rd mutoss/man/nparcomp.Rd mutoss/man/rom.Rd mutoss/man/mu.test.name.Rd mutoss/man/ranktruncated.Rd mutoss/man/snk.Rd mutoss/man/pval2locfdr.Rd mutoss/man/pValuesPlot.Rd mutoss/man/fisher23_fast.Rd mutoss/man/mutoss.models.Rd mutoss/man/adjPValuesPlot.Rd mutoss/man/jointCDF.orderedUnif.Rd mutoss/man/two.stage.Rd mutoss/man/SU.Rd mutoss/man/SUD.Rd mutoss/man/fisher22_fast.Rd mutoss/man/BY.Rd mutoss/man/aorc.Rd mutoss/man/holm.Rd mutoss/man/bonferroni.Rd mutoss/man/paired.marginal.Rd mutoss/man/Mutoss.Rd mutoss/man/gatherStatistics.Rd mutoss/man/indepBR.Rd mutoss/man/nparcomp.wrapper.Rd mutoss/man/onesamp.marginal.Rd mutoss/man/oracleBH.Rd mutoss/man/BR_pi0_est.Rd mutoss/man/requireLibrary.Rd mutoss/man/mu.test.rates.Rd mutoss/man/mutoss.plotCI.Rd mutoss/man/simulation.Rd mutoss/man/ftest.marginal.Rd mutoss/man/MutossMethod.Rd mutoss/man/augmentation.Rd mutoss/man/mu.test.type.Rd mutoss/man/reject.Rd mutoss/man/twosamp.marginal.Rd mutoss/man/gatherParameters.Rd mutoss/man/mu.test.class.Rd
mutoss/NEWS

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All documentation is copyright its authors; we didn't write any of that.