Uriah Daugaard bioinformatics · ecology · pipelines

Bioinformatics, ecology, pipelines

Uriah Daugaard — computational ecologist and bioinformatician. PhD in ecology (UZH), MSc in biostatistics. Microbiome pipelines, modelling and forecasting.
Drawing of a Chlamydomonas reinhardtii aggregate.
Drawing of D. nasutum, D. campylum and C. striatum (ciliates).
Drawing of a bacterial community.

Uriah Daugaard

bioinformatics · ecology · pipelines
PhD in Ecology·MSc in Biostatistics

My work spans bioinformatics, microbiome biology, ecological modelling and forecasting, statistics and machine learning. I turn sequencing and time series data into models of how living systems behave.

a short bio

I work as a computational ecologist at Cybiome (Basel, Switzerland, 2025 to 2027), where I build bioinformatics pipelines and predictive models for microbiome questions.

Before that I did a PhD in ecology at the University of Zurich (Petchey lab, 2020 to 2024) with a thesis on ecological forecasting, an MSc in Biostatistics at UZH, and a BSc in Biology and Environmental Sciences.

What I'm working on

currently on the bench
Amplicon
filtering + denoising taxonomy community structure function pathogenicity
Genomes
assembly + annotation phylogeny ecological niche metabolic capacity secondary metabolites biosafety
Analysis
machine learning feature selection ecological forecasting community modelling network analysis
Stack
R Python Quarto Docker Git HDF5

Selected publications

first or joint first author
2025
Limberger R., Daugaard U., Choffat Y., Gupta A., Jelić M., Jyrkinen S., Krug R.M., Nohl S., Pennekamp F., van Moorsel S.J., Zheng X., Zuppinger-Dingley D. & Petchey O.L. Mixed evidence for species diversity affecting ecological forecasts in constant versus declining light. Global Change Biology, 31, e70364. joint first
2024
Daugaard U., Merkli S., Merz E., Pomati F. & Petchey O.L. The dependence of forecasts on sampling frequency as a guide to optimizing monitoring in community ecology. Ecosphere, 15, e4786.
2022
Daugaard U., Munch S., Inauen D., Pennekamp F. & Petchey O.L. Forecasting in the face of ecological complexity: number and strength of species interactions determine forecast skill in ecological communities. Ecology Letters, 25, 1974-1985.