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Updated: Jul 2, 2026

Rapid Identification of Gram Negative Bacteria from Blood Culture Broth Using MALDI-TOF Mass Spectrometry
Published on: May 28, 2014
maldipickr dereplicates microbial MALDI-TOF spectra to facilitate multiplexed isolation
Charlie Pauvert1, David Wylensek1, Selina Nüchtern1
1Functional Microbiome Research Group, Institute of Medical Microbiology, University Hospital of RWTH Aachen, Aachen 52074, Germany.
Motivation:
Microbiologists use MALDI-TOF for fast and cheap identification of microbial isolates. However, most standard procedures rely on a commercial database. Bioinformatic tools to dereplicate MALDI-TOF spectra have been developed, but an open and resource-efficient tool to reduce the redundancy of microbial isolates is lacking. Here we develop "maldipickr" for de novo-clustering of MALDI-TOF spectra to dereplicate and select isolates, and thereby facilitate large-scale cultivation projects.
Availability And Implementation:
The R package "maldipickr" is available through CRAN at https://doi.org/10.32614/CRAN.package.maldipickr along extensive documentation at https://clavellab.github.io/maldipickr.
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Rapid Identification of Pathogens
MALDI-TOF Mass Spectrometry
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