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mutoss (version 0.1-4)

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

0.1-4

License

GPL

Maintainer

Kornelius Rohmeyer

Last Published

October 4th, 2010

Functions in mutoss (0.1-4)

Benjamini-Liu (1999) step-down procedure

gatherParameters

Extracts the parameters from the MutossSim objects in listOfObjects and...

mu.test.name

Tests if all hypotheses have the same names.

nparcomp.wrapper

Simultaneous confidence intervals for relative contrast effects...

BlaRoq

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

fisher23_fast

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

adaptiveSTS

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

mu.test.class

Test for compatible classes for comparison...

reject

bonferroni

Bonferroni correction...

SidakSD

Sidak-like (1987) step-down procedure

augmentation

Wrapper function to the augmentation methods of the multtest package.

jointCDF.orderedUnif

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

fisher22.marginal

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

Qvalue

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

multiple.down

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

indepBR

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

mu.test.same.data

Tests if the same pvalues were used by different procedures.

Benjamini-Hochberg (1995) linear step-up procedure

sidak

Sidak correction

regwq

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

mu.test.rates

Tests that different procedures used the same error rates.

adjPValuesPlot

A function plotting adjusted p-values...

mu.test.type

Tests that different procedures use the same error types.

MutossMethod-class

Class MutossMethod

fisher22_fast

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

nparcomp

Simultaneous confidence intervals for relative contrast effects...

aorc

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

hommel

Hommel's (1988) step-up-procedure

storey_pi0_est

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

hochberg

Hochberg (1988) step-up procedure

adaptiveBH

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

A general step-down procedure.

ranktruncated

Rank truncated p-Value procedure...

ftest.marginal

Marginal F test

mutoss.apply

Applies a function to a Mutoss object.

Marginal two sample test

onesamp.marginal

Marginal one sample test

snk

Student - Newman - Keuls rejective test procedure.

holm

Holm's (1979) step-down-procedure

linearStepUp

Linear Step Up Service Function...

SUD

A general step-up-down procedure.

BR_pi0_est

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

simulation

Simulation studies

multiple.down.adjust

A service function used by multiple...

gatherStatistics

Gathering statistics from MutossSim objects

TSBKY_pi0_est

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

twostageBR

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

Benjamini-Yekutieli (2001) step-up procedure

multcomp.wrapper

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

paired.marginal

Marginal paired two sample test

notterman

Notterman data set

two.stage

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

tukey.wrapper

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

ErrorControl-class

Class ErrorControl

pval2locfdr

Strimmer et al.'s fdrtool-based local fdr

mutoss.models

Mutoss Models

requireLibrary

Tries to load a package.

ABH_pi0_est

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

MutossSim-class

Class MutossSim

calculateBetaAdjustment

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

pValuesPlot

A function plotting p-values...

pval2qval

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

rom

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

oracleBH

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

A general step-up procedure.

compareMutoss

Functions for comparing outputs of different procedures.

fisher23.marginal

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

gao

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

printRejected

Internal MuTossProjekt-Function