Stochastic Ordering Using Permutations (and Pairwise Comparisons)

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Documentation for package ‘SOUP’ version 1.1

• DESCRIPTION file.

Help Pages

.DesM	Design Matrix For Pairwise Differences
.dummyze	From Factor To Dummy Variables
.makePermSpaceID	Constructs Row Indices Permutation Space
.makePValueMat	Construct Univariate _p_-Values Matrix
.orthoX	Residualises the response variables _w.r.t._ the matrix of covariates like in the linear models, therefore projecting on the space I - H where H is the _hat_ matrix of X
as.list	Methods for function 'as.list' in package 'SOUP'
as.list-method	Methods for function 'as.list' in package 'SOUP'
BHS	Multiplicity adjustment by Bonferroni-Holm-Shaffer's rule
FWEminP	FWE Adjustment Using Permutation
initialize	Methods for function 'initialize' in package 'SOUP': constructor
initialize-method	Methods for function 'initialize' in package 'SOUP': constructor
iterNPC	Iterated NonParametric Combination
NPC	NonParametric Combination of Test Statistic
PermSpace	Class 'PermSpace'
PermSpace-class	Class 'PermSpace'
plot	Class 'PermSpace'
plot-method	Class 'PermSpace'
plot-method	Class 'SoupObject'
print	'signature(x = "PermSpace")' It prints the whole object on screen (mostly useful for external saving)
print-method	Class 'PValueMat'
print-method	Class 'PermSpace'
print-method	Class 'SoupObject'
print-method	'signature(x = "PermSpace")' It prints the whole object on screen (mostly useful for external saving)
PValueMat	Class 'PValueMat'
PValueMat-class	Class 'PValueMat'
rankingRule	Performs the ranking
RankResults	Ranking Results
RankResults-class	Ranking Results
show	'signature(object = "PermSpace")' Shows only the main information (on screen) for the object
show-method	Class 'PValueMat'
show-method	Class 'PermSpace'
show-method	Class 'SoupObject'
show-method	'signature(object = "PermSpace")' Shows only the main information (on screen) for the object
SOUP	SOUP Main Function
SoupObject	Class 'SoupObject'
SoupObject-class	Class 'SoupObject'
t2p	From Test Statistics To _p_-Values