rotationtests  R Documentation 
The functions perform rotation testing based on a matrix of hypothesis observations and a matrix of error observations. Adjusted pvalues according to familywise error rates and false discovery rates are calculated.
rotationtests(xyObj, nSim, verbose = TRUE) rotationtest(modelData, errorData, simN = 999, dfE = 1, dispsim = TRUE)
xyObj 
a designwithresponses object created by 
nSim 
vector of nonnegative integers. The number of simulations to use for each term. 
verbose 
logical. Whether 
modelData 
matrix of hypothesis observations 
errorData 
matrix of error observations 
simN 
Number of simulations for each test. Can be a single value or a list of values for each term. 
dfE 
Degrees of freedom for error needs to be specified if

dispsim 
When 
modelData
and errorObs
correspond to hypObs
and
errorObs
calculated by xy_Obj
. These matrices are efficient
representations of sums of squares and crossproducts (see
xy_Obj
for details). This means that rotationtest
can
be viewed as a generalised Ftest function.
rotationtests
is a wrapper function that calls rotationtest
for each term in the xyObj
and collects the results.
Both functions return a list with components
pAdjusted 
adjusted pvalues according to familywise error rates 
pAdjFDR 
adjusted pvalues according to false discovery rates 
simN 
number of simulations performed for each term 
Øyvind Langsrud and BjørnHelge Mevik
Langsrud, Ø. (2005) Rotation Tests. Statistics and Computing, 15, 53–60.
Moen, B., Oust, A., Langsrud, Ø., Dorrell, N., Gemma, L., Marsden, G.L., Hinds, J., Kohler, A., Wren, B.W. and Rudi, K. (2005) An explorative multifactor approach for investigating global survival mechanisms of Campylobacter jejuni under environmental conditions. Applied and Environmental Microbiology, 71, 20862094.
unitest
, unitests
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