mControl: Auxiliary for feeding parameters to different methods

Description

A function to create a list of arguments for ictest.

Usage

mControl(cm=NULL,nmc=10^3-1,seed=1234321,digits=12,p.conf.level=.99,
    setSEED=TRUE,tol.svd=10^-8,nwsr=10^3-1,np=10^3-1)

Arguments

a choose(n,m) by n matrix, used if method='exact.ce', ignored otherwise

nmc

number of Monte Carlo replications, used if method='exact.mc', ignored otherwise

seed

value used in set.seed if method='exact.mc', or any of three wsr methods, ignored otherwise

setSEED

logical, set to FALSE when performing simulations

p.conf.level

confidence level for p value estimate, used if method='exact.mc', ignored otherwise

digits

number of digits to use in signif for precision of test statistics

tol.svd

tolerance for use in calculating g-inverse, values less than tol.svd are set to zero, used when method='scoretest'

nwsr

number of within subject resamples, used when method='wsr.mc', 'wsr.HLY', or 'wsr.pclt'

number of permutation replications within each wsr, used when method='wsr.mc'

Value

An list with the arguments as components.

Details

When cm=NULL the resulting matrix is created by chooseMatrix, it may be optionally provided here only so that chooseMatrix does not need to be repeatedly called in simulations. Also when doing simulations (with method='exact.mc' or any of the wsr methods), use setSEED=FALSE so that the seed is not reset to the same value each time you call the function. See calcPvalsMC for description of how p.conf.level is used.