Computes a null t distribution for each gene by permuting the phenotypes.
a numeric matrix of expression values, with the rows and columns representing probe sets and sample arrays, respectively
a numeric (or character if
an integer indicating the number of permutations to use
an integer indicating the number of groups in the expression matrix
a boolean indicating whether the function should consider all possible permutations of the phenotype, including the original, non-permuted phenotype
calcTStatFast but calculates t-statistics over permuted
allphenotypes == FALSE, then any permutation
that has a permuted phenotype equal to the original phenotype will be
repermuted. For example, all the possible permutations for
phenotype == c(0,0,1,1) are
FALSE, then the results will not include values from the
The help file of
calcTStatFast has more details on the
different statistics one can calculate based on the
value specified for
A matrix with
nsim rows and
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