adaptest

This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see adaptest.

Data-Adaptive Statistics for High-Dimensional Multiple Testing

Bioconductor version: 3.9

Data-adaptive test statistics represent a general methodology for performing multiple hypothesis testing on effects sizes while maintaining honest statistical inference when operating in high-dimensional settings (). The utilities provided here extend the use of this general methodology to many common data analytic challenges that arise in modern computational and genomic biology.

Author: Weixin Cai [aut, cre, cph], Nima Hejazi [aut], Alan Hubbard [ctb, ths]

Maintainer: Weixin Cai <wcai at berkeley.edu>

Citation (from within R, enter citation("adaptest")):

Installation

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("adaptest")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("adaptest")

Data-Mining Biomarkers and High-Dimensional Testing	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, DimensionReduction, GeneExpression, Genetics, Microarray, MultipleComparison, Regression, Sequencing, Software
Version	1.4.0
In Bioconductor since	BioC 3.7 (R-3.5) (6 years)
License	GPL-2
Depends	R (>= 3.5.0)
Imports	origami (>= 1.0.0), tmle, calibrate, methods, graphics, stats, utils, SummarizedExperiment
System Requirements
URL	https://github.com/wilsoncai1992/adaptest
Bug Reports	https://github.com/wilsoncai1992/adaptest/issues

Suggests	testthat, Matrix, SuperLearner, earth, gam, nnls, airway, rmarkdown, knitr, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	adaptest_1.4.0.tar.gz
Windows Binary	adaptest_1.4.0.zip
Mac OS X 10.11 (El Capitan)	adaptest_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/adaptest
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/adaptest
Bioc Package Browser	https://code.bioconductor.org/browse/adaptest/
Package Short Url	https://bioconductor.org/packages/adaptest/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.9	Source Archive