Microbiome data

Statistical end-to-end analysis of large-scale microbial growth data with DGrowthR
Quantitative analysis of microbial growth curves is essential for understanding how bacterial populations respond to environmental …
Medina Feldl, Roberto Olayo-Alarcon, Martin K Amstalden, Annamaria Zannoni, Stefanie Peschel, Cynthia M Sharma, Ana Rita Brochado, Christian L Müller
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Statistical end-to-end analysis of large-scale microbial growth data with DGrowthR
The Janus face of Bifidobacterium in the development of atopic eczema: A role for compositional maturation
Background: Atopic eczema often develops in the first year of life, when the composition of the gut microbiota is most plastic as …
Martin Depner, Diana Hazard Taft, Stefanie Peschel, Caroline Roduit
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ECCB 2024
Workshop “Orchestrating Microbiome Analysis with Bioconductor”
Sep 16, 2024
Project Conference Workshop
Applied Microbiome Statistics: Correlation, Association, Interaction and Composition
My contribution: I contributed to the book by supporting the authors in the chapters on network construction and comparison. Specifically, I provided insights into the latest features of my R package NetCoMi, including examples on how to code these features effectively.
Yinglin Xia, Jun Sun
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Applied Microbiome Statistics: Correlation, Association, Interaction and Composition
Online Book "Orchestrating Microbiome Analysis"
Contribution to this online book with two chapters on microbial network analysis
Online Book "Orchestrating Microbiome Analysis"
Over-optimism in unsupervised microbiome analysis: Insights from network learning and clustering
In recent years, unsupervised analysis of microbiome data, such as microbial network analysis and clustering, has increased in …
Theresa Ullmann, Stefanie Peschel, Philipp Finger, Christian L. Müller, Anne-Laure Boulesteix
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Over-optimism in unsupervised microbiome analysis: Insights from network learning and clustering
NetCoMi
Network Construction and Comparison for Microbiome Data
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NetCoMi
NetCoMi: network construction and comparison for microbiome data in R
NetCoMi is an R package that implements our proposed workflow for constructing and analyzing single microbial association networks as well as quantifying network differences.
Stefanie Peschel, Christian L. Müller, Erika von Mutius, Anne-Laure Boulesteix, Martin Depner
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NetCoMi: network construction and comparison for microbiome data in R
Maturation of the gut microbiome during the first year of life contributes to the protective farm effect on childhood asthma
Growing up on a farm is associated with an asthma-protective effect, but the mechanisms underlying this effect are largely unknown. In …
Martin Depner, Diana Hazard Taft, Pirkka V. Kirjavainen, Karen M. Kalanetra, Anne M. Karvonen, Stefanie Peschel, et al.
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Maturation of the gut microbiome during the first year of life contributes to the protective farm effect on childhood asthma