bioconductor-multtest

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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.

Home http://bioconductor.org/packages/release/bioc/html/multtest.html
Versions 2.26.0, 2.28.0
License LGPL
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-multtest

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-multtest

and update with:

conda update bioconductor-multtest

docker

A Docker container is available at https://quay.io/repository/biocontainers/bioconductor-multtest.