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mutoss (version 0.1-12)

Unified Multiple Testing Procedures

Description

Designed to ease the application and comparison of multiple hypothesis testing procedures for FWER, gFWER, FDR and FDX. Methods are standardized and usable by the accompanying 'mutossGUI'.

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Install

install.packages('mutoss')

Monthly Downloads

3,884

Version

0.1-12

License

GPL

Issues

1

Pull Requests

0

Stars

4

Forks

0

Maintainer

Kornelius Rohmeyer

Last Published

December 4th, 2017

Functions in mutoss (0.1-12)

ErrorControl-class

Class ErrorControl
BL

Benjamini-Liu (1999) step-down procedure
MutossMethod-class

Class MutossMethod
BR_pi0_est

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

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

Class Mutoss
ABH_pi0_est

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

Benjamini-Yekutieli (2001) step-up procedure
BH

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

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

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

A function plotting adjusted p-values...
aorc

Step-up-down test based on the asymptotically optimal rejection curve.
TSBKY_pi0_est

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

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

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

A general step-up-down procedure.
SidakSD

Sidak-like (1987) step-down procedure
fisher22_fast

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

Xin Gao's non-parametric multiple test procedure is applied to Data.
fisher23.marginal

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

Extracts the parameters from the simulation()-Object
compareMutoss

Functions for comparing outputs of different procedures.
holm

Holm's (1979) step-down-procedure
fisher22.marginal

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

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

Hommel's (1988) step-up-procedure
jointCDF.orderedUnif

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

A service function used by multiple...
mutoss.models

Mutoss Models
mu.test.name

Tests if all hypotheses have the same names.
mu.test.rates

Tests that different procedures used the same error rates.
mutoss.plotCI

mutoss.plotCI
notterman

Notterman data set
multcomp.wrapper

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

Simultaneous confidence intervals for relative contrast effects...
multiple.down

Benjamini-Krieger-Yekutieli (2006) Multi-Stage Step-Down
two.stage

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

Marginal two sample test
ranktruncated

Rank truncated p-Value procedure...
mutoss.apply

Applies a function to a Mutoss object.
regwq

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

Simultaneous confidence intervals for relative contrast effects...
onesamp.marginal

Marginal one sample test
paired.marginal

Marginal paired two sample test
printRejected

Internal MuTossProjekt-Function
fisher23_fast

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

Marginal F test
storey_pi0_est

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

Hochberg (1988) step-up procedure
gatherStatistics

Gathering statistics from simulation()-Object
mu.test.same.data

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

reject
requireLibrary

Tries to load a package.
mu.test.type

Tests that different procedures use the same error types.
rom

Rom's (1990) step-up-procedure.
pval2locfdr

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

Sidak correction
SD

A general step-down procedure.
linearStepUp

Linear Step Up Service Function...
SU

A general step-up procedure.
mu.test.class

Test for compatible classes for comparison...
oracleBH

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

Bonferroni correction...
pValuesPlot

A function plotting p-values...
pval2qval

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

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

Simulation studies
tukey.wrapper

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

Student - Newman - Keuls rejective test procedure.
twostageBR

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