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RnBeads 2.0: comprehensive analysis of DNA methylation data

Fabian Müller, Michael Scherer, Yassen Assenov, Pavlo Lutsik, Jörn Walter, Thomas Lengauer, Christoph Bock

Genome biology · 2019 · ▲ 427 citations

Epigenetic alterations

Abstract

DNA methylation is a widely investigated epigenetic mark with important roles in development and disease. High-throughput assays enable genome-scale DNA methylation analysis in large numbers of samples. Here, we describe a new version of our RnBeads software - an R/Bioconductor package that implements start-to-finish analysis workflows for Infinium microarrays and various types of bisulfite sequencing. RnBeads 2.0 ( https://rnbeads.org/ ) provides additional data types and analysis methods, new functionality for interpreting DNA methylation differences, improved usability with a novel graphical user interface, and better use of computational resources. We demonstrate RnBeads 2.0 in four re-runnable use cases focusing on cell differentiation and cancer.

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Provenance

Source: OpenAlex
DOI: 10.1186/s13059-019-1664-9
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Fetched: 2026-07-24 MST

Cite this

APA

Müller, F., Scherer, M., Assenov, Y., Lutsik, P., Walter, J., Lengauer, T., & Bock, C. (2019). RnBeads 2.0: comprehensive analysis of DNA methylation data. <em>Genome biology</em>. https://doi.org/10.1186/s13059-019-1664-9

Vancouver

Müller F, Scherer M, Assenov Y, Lutsik P, Walter J, Lengauer T, et al. RnBeads 2.0: comprehensive analysis of DNA methylation data. Genome biology. 2019. doi:10.1186/s13059-019-1664-9.

BibTeX

@article{fabian2019RnBead, title = {RnBeads 2.0: comprehensive analysis of DNA methylation data}, author = {Fabian Müller and Michael Scherer and Yassen Assenov and Pavlo Lutsik and Jörn Walter and Thomas Lengauer and Christoph Bock}, journal = {Genome biology}, year = {2019}, doi = {10.1186/s13059-019-1664-9}, }