BEclear

DOI: 10.18129/B9.bioc.BEclear    

This is the development version of BEclear; for the stable release version, see BEclear.

Correct for batch effects in DNA methylation data

Bioconductor version: Development (3.8)

Provides some functions to detect and correct for batch effects in DNA methylation data. The core function is based on latent factor models and can also be used to predict missing values in any other matrix containing real numbers.

Author: Markus Merl, Ruslan Akulenko, David Rasp

Maintainer: David Rasp <david.j.rasp at gmail.com>

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

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("BEclear", version = "devel")

Documentation

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

browseVignettes("BEclear")

 

PDF R Script BEclear tutorial
PDF   Reference Manual
Text   NEWS

Details

biocViews BatchEffect, DNAMethylation, Software
Version 1.13.7
In Bioconductor since BioC 3.1 (R-3.2) (3.5 years)
License GPL-2
Depends BiocParallel(>= 1.15.12)
Imports futile.logger, stats, Rdpack, graphics, Matrix, utils, methods, data.table (>= 1.11.8)
LinkingTo
Suggests
SystemRequirements
Enhances
URL https://github.com/David-J-R/BEclear
BugReports https://github.com/David-J-R/BEclear/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 BEclear_1.13.7.tar.gz
Windows Binary BEclear_1.13.7.zip
Mac OS X 10.11 (El Capitan) BEclear_1.13.7.tgz
Source Repository git clone https://git.bioconductor.org/packages/BEclear
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BEclear
Package Short Url http://bioconductor.org/packages/BEclear/
Package Downloads Report Download Stats

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