MBECS: Microbiome Batch Effects Correction Suite

Michael Olbrich; Axel Künstner; Hauke Busch

doi:10.1186/s12859-023-05252-w

MBECS: Microbiome Batch Effects Correction Suite

BMC Bioinformatics. 2023 May 3;24(1):182. doi: 10.1186/s12859-023-05252-w.

Authors

Michael Olbrich^{1

2

3}, Axel Künstner^#^{4

5}, Hauke Busch^#⁶

Affiliations

¹ Lübeck Institute for Experimental Dermatology, University of Lübeck, Lübeck, Germany. roland.olbrich@ku.ac.ae.
² Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany. roland.olbrich@ku.ac.ae.
³ Center for Biotechnology, Khalifa University, Abu Dhabi, United Arab Emirates. roland.olbrich@ku.ac.ae.
⁴ Lübeck Institute for Experimental Dermatology, University of Lübeck, Lübeck, Germany.
⁵ Institute for Cardiogenetics, University of Lübeck, Lübeck, Germany.
⁶ Lübeck Institute for Experimental Dermatology, University of Lübeck, Lübeck, Germany. hauke.busch@uksh.de.

^# Contributed equally.

Abstract

Despite the availability of batch effect correcting algorithms (BECA), no comprehensive tool that combines batch correction and evaluation of the results exists for microbiome datasets. This work outlines the Microbiome Batch Effects Correction Suite development that integrates several BECAs and evaluation metrics into a software package for the statistical computation framework R.

Keywords: Batch effects; Bioconductor; Microbiome; R-package; phyloseq.

MeSH terms

Algorithms
Microbiota*
Software*

Grants and funding

EXC 22167-390884018/German Research Foundation, DFG