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mutoss (version 0.1-1)

GUI and wrappers for 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

0.1-1

License

GPL

Maintainer

Kornelius Rohmeyer

Last Published

August 18th, 2010

Functions in mutoss (0.1-1)

SUD

A general step-up-down procedure.
linearStepUp

Linear Step Up Service Function...
ABH_pi0_est

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

Benjamini-Yekutieli (2001) step-up procedure
indepBR

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

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

Class MutossMethod
adaptiveSTS

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

A function plotting p-values...
calculateBetaAdjustment

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

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

Gathering statistics from simulation()-Object
hommel

Hommel's (1988) step-up-procedure
compareMutoss

Functions for comparing outputs of different procedures.
ranktruncated

Rank truncated p-Value procedure...
MutossSim-class

Class MutossSim
gatherParameters

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

A general step-down procedure.
mutoss.apply

Applies a function to a Mutoss object.
SU

A general step-up procedure.
TSBKY_pi0_est

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

Holm's (1979) step-down-procedure
mutoss.plotCI

mutoss.plotCI
augmentation

Wrapper function to the augmentation methods of the multtest package.
BH

Benjamini-Hochberg (1995) linear step-up procedure
bonferroni

Bonferroni correction...
fisher23_fast

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

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

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

Tests that different procedures used the same error rates.
multcomp.wrapper

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

Tests if all hypotheses have the same names.
ftest.marginal

Marginal F test
fisher23.model

Fisher-type (2x3) table as model for marginal hypotheses testing problems...
pval2locfdr

Strimmer et al.'s fdrtool-based local fdr
simulation

Simulation studies
two.stage

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

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

Benjamini-Liu (1999) step-down procedure
fisher22.marginal

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

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

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

Sidak-like (1987) step-down procedure
paired.marginal

Marginal paired two sample test
mu.test.type

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

Tests if the same pvalues were used by different procedures.
fisher22_fast

Fisher (2x2) table association analysis for calculating one (marginal) p-value...
storey_pi0_est

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

Hochberg (1988) step-up procedure
fisher23.marginal

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

A service function used by multiple...
nparcomp.wrapper

Simultaneous confidence intervals for relative contrast effects...
snk

Student - Newman - Keuls rejective test procedure.
mutoss.models

Mutoss Models
twostageBR

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

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

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

Test for compatible classes for comparison...
printRejected

Internal MuTossProjekt-Function
nparcomp

Simultaneous confidence intervals for relative contrast effects...
sidak

Sidak correction
BR_pi0_est

Estimate of pi0 using the one-step Blanchard-Roquain procedure
twosamp.marginal

Marginal two sample test
ErrorControl-class

Class ErrorControl
Qvalue

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

Tries to load a package.
adjPValuesPlot

A function plotting adjusted p-values...
jointCDF.orderedUnif

Joint cumulative distribution function of order statistics of n iid. U(0,1)-distributed random variables
pval2qval

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

Class Mutoss
onesamp.marginal

Marginal one sample test
reject

reject
fisher22.model

Fisher (2x2) table as model for marginal hypotheses testing problems...
notterman

Notterman data set