Author

Matteo Calgaro

University of VeronaORCID 0000-0002-3056-518XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Organism:bacteria (other)· 1 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Approach:deep learning· 1 Research Focus:gene regulatory network inference· 1 Assay:metagenomics· 1 Research Focus:variant calling· 1

Frequent Co-Authors

Nicola VituloiD· 2 shared Bas TeusinkiD· 1 shared Chiara RomualdiiD· 1 shared Davide RissoiD· 1 shared Elisa SalvettiiD· 1 shared Francesca Di CesareiD· 1 shared Gioele LazzariiD· 1 shared Giovanna E. FelisiD· 1 shared

Activity by Year

2020-2025 · peak 1/yr

Co-Author Collaboration Network

9 top collaborators · 21 mutual co-author links

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2 shared papersMicrobiology

Nicola VituloORCID

Mutual co-authors in cluster

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2 papers

Recent·Most cited

MicrobiologymSystemsPeer-reviewedDec 12, 2025

Gempipe: a tool for drafting, curating and analyzing pan and multi-strain genome-scale metabolic models.

Gioele Lazzari, Giovanna E. Felis, Elisa Salvetti…·Nicola Vitulo

Gempipe improves multi-strain genome-scale metabolic model reconstruction by combining reference and reference-free methods, enhancing accuracy and enabling strain-specific metabolic analysis.

DOI 10.1128/msystems.01007-25

bacteria (other)whole-genome sequencing

𝕏 PostBluesky

BioinformaticsGenome biologyPeer-reviewedAug 3, 2020

Assessment of statistical methods from single cell, bulk RNA-seq and metagenomics applied to microbiome data

Matteo Calgaro, Chiara Romualdi, Levi Waldron…·Nicola Vitulo

The paper benchmarks statistical methods for microbiome data against RNA-seq methods, finding that univariate RNA-seq methods perform as well as microbiome-specific methods.

126 citationstop 3%

metagenomicsstatistical model

𝕏 PostBluesky