get.index

adjp

Numeric vector of unadjusted ("raw") marginal p-values.

rawp

stat


The hypotheses tested in a multiple testing procedure (MTP), can be ordered based on the output of that procedure. This function orders hypotheses based on adjusted p-values, then unadjusted p-values (to break ties in adjusted p-values), and finally test statistics (to break remaining ties).


internal

htest

Non-parametric bootstrap and permutation resampling-based
multiple testing procedures (including empirical Bayes methods)
for controlling the family-wise error rate (FWER), generalized
family-wise error rate (gFWER), tail probability of the
proportion of false positives (TPPFP), and false discovery rate
(FDR).  Several choices of bootstrap-based null distribution
are implemented (centered, centered and scaled,
quantile-transformed). Single-step and step-wise methods are
available. Tests based on a variety of t- and F-statistics
(including t-statistics based on regression parameters from
linear and survival models as well as those based on
correlation parameters) are included.  When probing hypotheses
with t-statistics, users may also select a potentially faster
null distribution which is multivariate normal with mean zero
and variance covariance matrix derived from the vector
influence function.  Results are reported in terms of adjusted
p-values, confidence regions and test statistic cutoffs. The
procedures are directly applicable to identifying
differentially expressed genes in DNA microarray experiments.

get.index: Function to compute indices for ordering hypotheses in Package 'multtest'

Description

Usage

Arguments

Value

See Also

Examples