cherry: Multiple Testing Methods for Exploratory Research
Version 0.6-11

Provides an alternative approach to multiple testing by calculating a simultaneous upper confidence bounds for the number of true null hypotheses among any subset of the hypotheses of interest. Some of the functions in this package are optionally enhanced by the 'gurobi' software and its accompanying R package. For their installation, please follow the instructions at www.gurobi.com and http://www.gurobi.com/documentation, respectively.

AuthorJelle Goeman, Aldo Solari, Rosa Meijer
Date of publication2015-06-22 19:53:18
MaintainerJelle Goeman <jelle.goeman@radboudumc.nl>
LicenseGPL (>= 2)
Version0.6-11
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("cherry")

Popular man pages

adjusted: Adjusted p-values for the number of true hypotheses.
construct: Constructing a DAG.
DAGpick: Confidence limits for the number of false hypotheses in a...
hommel-class: Class "hommel" for storing the adjusted p-values of Hommel's...
NAEP: National Assessment of Educational Progress (NAEP) p-values
regionplots: Visualizing of the region hypotheses that could be rejected.
structuredHolm: Testing of hypotheses, forming a DAG, by using a variant of...
See all...

All man pages Function index File listing

Man pages

adjusted: Adjusted p-values for the number of true hypotheses.
closed: Closed Testing for Exploratory Research
closure-class: Class "closure" for storing the result of the closed testing...
construct: Constructing a DAG.
DAG-class: Class "DAG" for storing the result of the DAG multiple...
DAGmethod: Testing of hypotheses, forming a DAG.
DAGpick: Confidence limits for the number of false hypotheses in a...
DAGstructure-class: Class "DAGstructure" for storing the result of the construct...
hommel-class: Class "hommel" for storing the adjusted p-values of Hommel's...
hommelFast: Calculates adjusted p-values of Hommel's method efficiently.
NAEP: National Assessment of Educational Progress (NAEP) p-values
region-class: Class "region" for storing the result of the region procedure
regionmethod: Testing of all possible region hypotheses
regionpick: Confidence limits for the number of false hypotheses in a...
regionplots: Visualizing of the region hypotheses that could be rejected.
select: Confidence limits for the number of true hypotheses.
shortcuts: Confidence limits for the number of true hypotheses, with...
structuredHolm: Testing of hypotheses, forming a DAG, by using a variant of...

Functions

DAG Man page
DAG-class Man page
DAGmethod Man page Source code
DAGpick Man page Source code
DAGstructure Man page
DAGstructure-class Man page
DP_BW Source code
DP_FW Source code
ILPholm Source code
LPdenom Source code
LPnumdenom Source code
NAEP Man page
adjpvalues Source code
adjusted Man page Source code
alpha Man page
alpha,DAG-method Man page
alpha,closure-method Man page
alpha,region-method Man page
alpha<- Man page
alpha<-,closure-method Man page
bit2boolean Source code
calculate_all_ratios Source code
ceil Source code
check Source code
closed Man page Source code
closure Man page
closure-class Man page
construct Man page Source code
curveFisher Man page Source code
curveMeinshausen Man page Source code
curveSimes Man page Source code
curveSimes_old Source code
defining Man page Source code
defining,closure-method Man page
findMin Source code
findRejections Source code
getLPsolver Source code
get_implications Source code
get_ratio Source code
hommel Man page
hommel-class Man page
hommelFast Man page Source code
hypotheses Man page
hypotheses,closure-method Man page
implications Man page
implications,DAG-method Man page
implications,region-method Man page
impls_to_polygon Source code
is_rejected Source code
istwoway Man page
istwoway,DAGstructure-method Man page
jumps Source code
makeCats Source code
make_p_and_c Source code
matrix_to_implications Source code
num2names Source code
pick Man page Source code
pickFisher Man page Source code
pickMeinshausen Man page Source code
pickSimes Man page Source code
pickSimes_old Source code
propagate Source code
pvalue Man page
pvalue,DAG-method Man page
pvalue,hommel-method Man page
pvalue,region-method Man page
region Man page
region-class Man page
regionmethod Man page Source code
regionpick Man page Source code
regionplot Man page Source code
regionplot2 Man page Source code
removeMultiples Source code
set_in_leaves Source code
shortlist Man page Source code
shortlist,closure-method Man page
shortlist_old Source code
show,DAG-method Man page
show,closure-method Man page
show,region-method Man page
smaller Source code
solveLP_gurobi Source code
solveLP_lpsolve Source code
split Source code
structuredHolm Man page Source code
summary,DAG-method Man page
summary,closure-method Man page
summary,region-method Man page
update_cands Source code
update_impls Source code
update_max_weights Source code
update_weights Source code

Files

inst
inst/CITATION
inst/doc
inst/doc/cherry.R
inst/doc/cherry.pdf
inst/doc/cherry.Rnw
NAMESPACE
data
data/NAEP.RData
R
R/shortcuts.R
R/DAGstructure.R
R/regionmethod.R
R/DAGmethod.R
R/structuredHolm.R
R/Meinshausen.R
R/closed.R
vignettes
vignettes/cherrypackage.bib
vignettes/cherry.Rnw
MD5
build
build/vignette.rds
DESCRIPTION
ChangeLog
man
man/hommelFast.Rd
man/regionmethod.Rd
man/DAGmethod.Rd
man/closed.Rd
man/DAG-class.Rd
man/NAEP.Rd
man/DAGpick.Rd
man/region-class.Rd
man/adjusted.Rd
man/structuredHolm.Rd
man/DAGstructure-class.Rd
man/regionplots.Rd
man/shortcuts.Rd
man/construct.Rd
man/hommel-class.Rd
man/regionpick.Rd
man/select.Rd
man/closure-class.Rd
cherry documentation built on May 19, 2017, 4:03 p.m.

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