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This is the development version of BERT; to use it, please install the devel version of Bioconductor.

Hierarchical Batch-Effect Adjustment with Trees

Bioconductor version: Development (3.19)

Provides efficient batch-effect adjustment of data with missing values. BERT orders all batch effect correction to a tree of pairwise computations. BERT allows parallelization over sub-trees.

Author: Yannis Schumann [aut, cre] , Simon Schlumbohm [aut]

Maintainer: Yannis Schumann <schumany at hsu-hh.de>

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


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:

BERT-Vignette HTML R Script
Reference Manual PDF


biocViews BatchEffect, ExperimentalDesign, Preprocessing, Software
Version 0.99.15
In Bioconductor since BioC 3.19 (R-4.4)
License GPL-3
Depends R (>= 4.3.0)
Imports cluster, comprehenr, foreach (>= 1.5.2), invgamma, iterators (>= 1.0.14), janitor (>= 2.2.0), limma(>= 3.46.0), logging (>= 0.10-108), sva(>= 3.38.0), SummarizedExperiment, methods, BiocParallel
System Requirements
URL https://github.com/HSU-HPC/BERT/
Bug Reports https://github.com/HSU-HPC/BERT/issues
See More
Suggests testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle
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Package Archives

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

Source Package BERT_0.99.15.tar.gz
Windows Binary BERT_0.99.15.zip
macOS Binary (x86_64) BERT_0.99.15.tgz
macOS Binary (arm64) BERT_0.99.15.tgz
Source Repository git clone https://git.bioconductor.org/packages/BERT
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BERT
Bioc Package Browser https://code.bioconductor.org/browse/BERT/
Package Short Url https://bioconductor.org/packages/BERT/
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