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mutoss (version 0.1-7)

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

0.1-7

License

GPL

Maintainer

Kornelius Rohmeyer

Last Published

May 7th, 2012

Functions in mutoss (0.1-7)

adaptiveBH

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

mu.test.class

Test for compatible classes for comparison...

adaptiveSTS

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

fisher23.marginal

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

SUD

A general step-up-down procedure.

Benjamini-Hochberg (1995) linear step-up procedure

mu.test.rates

Tests that different procedures used the same error rates.

SidakSD

Sidak-like (1987) step-down procedure

hommel

Hommel's (1988) step-up-procedure

ABH_pi0_est

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

gatherStatistics

Gathering statistics from simulation()-Object

Qvalue

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

augmentation

Wrapper function to the augmentation methods of the multtest package.

Mutoss-class

Class Mutoss

mu.test.name

Tests if all hypotheses have the same names.

mu.test.type

Tests that different procedures use the same error types.

A general step-up procedure.

TSBKY_pi0_est

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

Benjamini-Liu (1999) step-down procedure

ErrorControl-class

Class ErrorControl

jointCDF.orderedUnif

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

hochberg

Hochberg (1988) step-up procedure

gatherParameters

Extracts the parameters from the simulation()-Object

nparcomp

Simultaneous confidence intervals for relative contrast effects...

BlaRoq

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

holm

Holm's (1979) step-down-procedure

gao

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

multiple.down

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

mutoss.models

Mutoss Models

linearStepUp

Linear Step Up Service Function...

regwq

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

bonferroni

Bonferroni correction...

storey_pi0_est

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

aorc

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

BR_pi0_est

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

reject

indepBR

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

notterman

Notterman data set

twostageBR

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

fisher22_fast

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

snk

Student - Newman - Keuls rejective test procedure.

rom

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

Benjamini-Yekutieli (2001) step-up procedure

ftest.marginal

Marginal F test

compareMutoss

Functions for comparing outputs of different procedures.

MutossMethod-class

Class MutossMethod

calculateBetaAdjustment

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

simulation

Simulation studies

paired.marginal

Marginal paired two sample test

fisher22.marginal

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

ranktruncated

Rank truncated p-Value procedure...

multiple.down.adjust

A service function used by multiple...

mutoss.apply

Applies a function to a Mutoss object.

printRejected

Internal MuTossProjekt-Function

tukey.wrapper

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

fisher23_fast

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

two.stage

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

pval2qval

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

mutoss.plotCI

requireLibrary

Tries to load a package.

multcomp.wrapper

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

twosamp.marginal

Marginal two sample test

sidak

Sidak correction

nparcomp.wrapper

Simultaneous confidence intervals for relative contrast effects...

adjPValuesPlot

A function plotting adjusted p-values...

A general step-down procedure.

mu.test.same.data

Tests if the same pvalues were used by different procedures.

pValuesPlot

A function plotting p-values...

pval2locfdr

Strimmer et al.'s fdrtool-based local fdr

onesamp.marginal

Marginal one sample test

oracleBH

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