randRotation

DOI: 10.18129/B9.bioc.randRotation    

Random Rotation Methods for High Dimensional Data with Batch Structure

Bioconductor version: Release (3.11)

A collection of methods for performing random orthogonal transformations (random rotations) on high-dimensional data (e.g. microarray or RNA-seq data) with batch structure. The random rotation approach allows exact testing of dependent test statistics with linear models following arbitrary, particularly non-linear, batch effect correction methods. The package further provides methods for estimating the local degrees of freedom of data mappings.

Author: Peter Hettegger [aut, cre]

Maintainer: Peter Hettegger <p.hettegger at gmail.com>

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("randRotation")

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("randRotation")

 

HTML	R Script	Random Rotation Package Introduction
PDF		Reference Manual
Text		NEWS

Details

biocViews	BatchEffect, BiomedicalInformatics, DifferentialExpression, GeneExpression, Genetics, MicroRNAArray, Microarray, Normalization, Preprocessing, RNASeq, Sequencing, Software, StatisticalMethod
Version	1.0.0
In Bioconductor since	BioC 3.11 (R-4.0) (0.5 years)
License	GPL-3
Depends
Imports	methods, graphics, utils, stats, Rdpack (>= 0.7)
LinkingTo
Suggests	knitr, BiocParallel, lme4, rmarkdown, BiocStyle, testthat (>= 2.1.0), limma, sva
SystemRequirements
Enhances
URL	https://github.com/phettegger/randRotation
BugReports	https://github.com/phettegger/randRotation/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	randRotation_1.0.0.tar.gz
Windows Binary	randRotation_1.0.0.zip
macOS 10.13 (High Sierra)	randRotation_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/randRotation
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/randRotation
Package Short Url	https://bioconductor.org/packages/randRotation/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.11	Source Archive