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mutoss (version 0.1-9)

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

0.1-9

License

GPL

Maintainer

Kornelius Rohmeyer

Last Published

March 12th, 2015

Functions in mutoss (0.1-9)

ErrorControl-class

Class ErrorControl

Qvalue

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

Mutoss-class

Class Mutoss

linearStepUp

Linear Step Up Service Function...

mu.test.name

Tests if all hypotheses have the same names.

sidak

Sidak correction

multcomp.wrapper

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

MutossMethod-class

Class MutossMethod

fisher22.marginal

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

SidakSD

Sidak-like (1987) step-down procedure

calculateBetaAdjustment

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

adaptiveSTS

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

BR_pi0_est

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

Benjamini-Hochberg (1995) linear step-up procedure

adaptiveBH

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

onesamp.marginal

Marginal one sample test

Benjamini-Yekutieli (2001) step-up procedure

pval2qval

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

ftest.marginal

Marginal F test

fisher23_fast

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

notterman

Notterman data set

A general step-down procedure.

compareMutoss

Functions for comparing outputs of different procedures.

twosamp.marginal

Marginal two sample test

multiple.down.adjust

A service function used by multiple...

nparcomp

Simultaneous confidence intervals for relative contrast effects...

mu.test.type

Tests that different procedures use the same error types.

mu.test.rates

Tests that different procedures used the same error rates.

multiple.down

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

hommel

Hommel's (1988) step-up-procedure

mutoss.apply

Applies a function to a Mutoss object.

oracleBH

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

jointCDF.orderedUnif

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

hochberg

Hochberg (1988) step-up procedure

mutoss.plotCI

bonferroni

Bonferroni correction...

BlaRoq

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

tukey.wrapper

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

fisher23.marginal

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

two.stage

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

simulation

Simulation studies

A general step-up procedure.

twostageBR

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

nparcomp.wrapper

Simultaneous confidence intervals for relative contrast effects...

regwq

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

pValuesPlot

A function plotting p-values...

SUD

A general step-up-down procedure.

TSBKY_pi0_est

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

holm

Holm's (1979) step-down-procedure

mu.test.same.data

Tests if the same pvalues were used by different procedures.

adjPValuesPlot

A function plotting adjusted p-values...

ranktruncated

Rank truncated p-Value procedure...

pval2locfdr

Strimmer et al.'s fdrtool-based local fdr

reject

paired.marginal

Marginal paired two sample test

gatherParameters

Extracts the parameters from the simulation()-Object

gao

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

rom

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

augmentation

Wrapper function to the augmentation methods of the multtest package.

aorc

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

storey_pi0_est

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

printRejected

Internal MuTossProjekt-Function

indepBR

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

gatherStatistics

Gathering statistics from simulation()-Object

snk

Student - Newman - Keuls rejective test procedure.

fisher22_fast

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

mu.test.class

Test for compatible classes for comparison...

ABH_pi0_est

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

requireLibrary

Tries to load a package.

Benjamini-Liu (1999) step-down procedure

mutoss.models

Mutoss Models