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

Correction of batch effects in DNA methylation data

Bioconductor version: Development (3.19)

Provides 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: Livia Rasp [aut, cre] , Markus Merl [aut], Ruslan Akulenko [aut]

Maintainer: Livia Rasp <livia.rasp at gmail.com>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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


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

BEclear tutorial HTML R Script
Reference Manual PDF


biocViews BatchEffect, DNAMethylation, Preprocessing, Software, StatisticalMethod
Version 2.19.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License GPL-3
Depends BiocParallel(>= 1.14.2)
Imports futile.logger, Rdpack, Matrix, data.table (>= 1.11.8), Rcpp, abind, stats, graphics, utils, methods, dixonTest, ids
System Requirements C++11
URL https://github.com/uds-helms/BEclear
Bug Reports https://github.com/uds-helms/BEclear/issues
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Suggests testthat, BiocStyle, knitr, rmarkdown, pander, seewave
Linking To Rcpp
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Follow Installation instructions to use this package in your R session.

Source Package BEclear_2.19.0.tar.gz
Windows Binary BEclear_2.19.0.zip
macOS Binary (x86_64) BEclear_2.19.0.tgz
macOS Binary (arm64) BEclear_2.19.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/BEclear
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BEclear
Bioc Package Browser https://code.bioconductor.org/browse/BEclear/
Package Short Url https://bioconductor.org/packages/BEclear/
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