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mutoss (version 0.1-6)

Unified multiple testing procedures

Description

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

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Version

Install

install.packages('mutoss')

Monthly Downloads

12,197

Version

0.1-6

License

GPL

Maintainer

Kornelius Rohmeyer

Last Published

December 6th, 2011

Functions in mutoss (0.1-6)

mu.test.rates

Tests that different procedures used the same error rates.

Benjamini-Liu (1999) step-down procedure

hommel

Hommel's (1988) step-up-procedure

storey_pi0_est

Storey-Taylor-Siegmund estimation of pi0 (finite sample version)

Simultaneous confidence intervals for relative contrast effects...

adaptiveBH

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

ABH_pi0_est

Lowest Slope Line (LSL) method of Hochberg and Benjamini for estimating pi0

gao

Xin Gao's non-parametric multiple test procedure is applied to Data.

gatherParameters

Extracts the parameters from the simulation()-Object

Internal MuTossProjekt-Function

Benjamini-Hochberg (1995) linear step-up procedure

rom

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

Qvalue

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

mu.test.name

Tests if all hypotheses have the same names.

pValuesPlot

A function plotting p-values...

regwq

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

gatherStatistics

Gathering statistics from simulation()-Object

requireLibrary

Tries to load a package.

aorc

Step-up-down test based on the asymptotically optimal rejection curve.

multiple.down

Benjamini-Krieger-Yekutieli (2006) Multi-Stage Step-Down

holm

Holm's (1979) step-down-procedure

fisher22_fast

Fisher (2x2) table association analysis for calculating one (marginal) p-value...

mutoss.plotCI

linearStepUp

Linear Step Up Service Function...

fisher23_fast

Fisher-type (2x3) table association analysis for calculating one (marginal) p-value...

sidak

Sidak correction

indepBR

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

adaptiveSTS

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

mu.test.same.data

Tests if the same pvalues were used by different procedures.

fisher23.marginal

Fisher-type (2x3) table association analysis for calculating all marginal p-values...

A general step-down procedure.

mu.test.class

Test for compatible classes for comparison...

SUD

A general step-up-down procedure.

augmentation

Wrapper function to the augmentation methods of the multtest package.

tukey.wrapper

Tukey HSD test and simultaneous confidence intervals for all pairs comparisons...

Mutoss-class

Class Mutoss

SidakSD

Sidak-like (1987) step-down procedure

mutoss.apply

Applies a function to a Mutoss object.

multcomp.wrapper

Simultaneous confidence intervals for arbitrary parametric contrasts in unbalanced one-way layouts.

multiple.down.adjust

A service function used by multiple...

BlaRoq

Blanchard-Roquain (2008) step-up Procedure for arbitrary dependent p-Values...

A general step-up procedure.

Benjamini-Yekutieli (2001) step-up procedure

adjPValuesPlot

A function plotting adjusted p-values...

bonferroni

Bonferroni correction...

pval2qval

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

twosamp.marginal

Marginal two sample test

ErrorControl-class

Class ErrorControl

TSBKY_pi0_est

Two-step estimation method of Benjamini, Krieger and Yekutieli for estimating pi0

MutossMethod-class

Class MutossMethod

nparcomp

Simultaneous confidence intervals for relative contrast effects...

jointCDF.orderedUnif

Joint cumulative distribution function of order statistics of n iid. U(0,1)-distributed random variables

compareMutoss

Functions for comparing outputs of different procedures.

fisher22.marginal

Fisher (2x2) table association analysis for calculating all marginal p-values...

onesamp.marginal

Marginal one sample test

hochberg

Hochberg (1988) step-up procedure

paired.marginal

Marginal paired two sample test

simulation

Simulation studies

two.stage

A p-value procedure which controls the FDR for independent test statistics.

oracleBH

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

twostageBR

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

pval2locfdr

Strimmer et al.'s fdrtool-based local fdr

BR_pi0_est

Estimate of pi0 using the one-step Blanchard-Roquain procedure

calculateBetaAdjustment

Calculating the beta adjustment factor for the asymptotically optimal rejection curve.

mu.test.type

Tests that different procedures use the same error types.

ranktruncated

Rank truncated p-Value procedure...

snk

Student - Newman - Keuls rejective test procedure.