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Bioconductor - BERT (development version)

BERT

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

High Performance Data Integration for Large-Scale Analyses of Incomplete Omic Profiles Using Batch-Effect Reduction Trees (BERT)

Bioconductor version: Development (3.22)

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] ORCID: 0000-0002-2379-200X , Simon Schlumbohm [aut] ORCID: 0000-0002-0083-5142

Maintainer: Yannis Schumann <yannis.schumann at desy.de>

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

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("BERT")

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("BERT")
Details biocViews BatchEffect, ExperimentalDesign, Preprocessing, QualityControl, Software Version 1.5.0 In Bioconductor since BioC 3.19 (R-4.4) (1 year) 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 Package Archives

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

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