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Zachary Susswein

@zsusswein.bsky.social
589 followers 135 following 8 posts

I spend entirely too much time thinking about GAMs github.com/zsusswein

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Reposted by Zachary Susswein
Casey Middleton, PhD @caseymiddleton.bsky.social · 19/05/2026
🚨 Disease modelers: Do you use empirical VE estimates interchangeably to inform vaccine effect parameters? Me too, and it’s distorting our predictions. VE estimates often do not align with model parameters. We discuss these pitfalls & solutions in our new preprint: arxiv.org/abs/2605.18571 🧵👇
arxiv.org
Incorporating vaccine effects into epidemiological models: common pitfalls and solutions
Incorporating vaccination into mathematical models appears deceptively simple: models integrate vaccine-derived protections, such as reduced susceptibility to infection, using parameters informed by e...
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Casey Middleton, PhD @caseymiddleton.bsky.social · 26/01/2026
Models can be powerful tools to study associations in data. But do they reliably reveal the truth? 🚨 In our new study, @danlarremore.bsky.social and I show that the model used to estimate VE from test-negative designs (TNDs) may not translate to other correlates of risk. doi.org/10.1093/aje/...
doi.org
Statistical methods for estimating the protective effects of immune markers using test-negative designs
Abstract. While widely used to study vaccine effectiveness, test-negative designs (TNDs) also provide a platform for identifying and quantifying immunologi
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Reposted by Zachary Susswein
Chiara Poletto @chpoletto.bsky.social · 27/11/2025
Late advertisement of our new pre-print: Contact structure and population immunity shape the selective advantage of emerging variants www.medrxiv.org/content/10.1...
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Etienne Bacher @etiennebacher.bsky.social · 20/11/2025
#rstats Please welcome Jarl, a new R linter. Jarl is a CLI tool with extensions in VS Code, Positron, and Zed. It can check thousands of lines of R code in milliseconds. Jarl provides several output formats, a Github Actions workflow, and more. Blog post: www.etiennebacher.com/posts/2025-1...
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Greg Albery @gfalbery.bsky.social · 08/09/2025
Celebrating the publication of our big collaborative spatial-social meta-analysis of density-dependent transmission effects, out now in Nature Eco Evo! doi.org/10.1038/s415... (or rdcu.be/eD6eB)
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Gavin Simpson @gsimpson.bsky.social · 18/08/2025
🚀 gratia 0.11.0 is out! Now has a paper in JOSS — please cite 📄 doi.org/10.21105/jos... Experimental parallel processing ⚡ New assemble() for building plots 🎨 Better support for complex families + new diagnostics 🧪 Lots of bug fixes + polish ✨ 👉 gavinsimpson.github.io/gratia/ #Rstats
gavinsimpson.github.io
An R package for working with generalized additive models
Graceful 'ggplot'-based graphics and utility functions for working with generalized additive models (GAMs) fitted using the 'mgcv' package.
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Reposted by Zachary Susswein
Mark A. Hanson @hansonmark.bsky.social · 10/07/2025
The "reproducibility crisis" in science constantly makes headlines. Repro efforts are often limited. What if you could assess reproducibility of an entire field? That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience A 🧵 1/n
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Richard McElreath 🐈‍⬛ @rmcelreath.bsky.social · 28/01/2025
All my ecology peeps slinging the GAM(M)s might find this paper interesting. I was surprised to learn there is a frequentist interpretation of GAM(M)s! (jk) besjournals.onlinelibrary.wiley.com/doi/full/10....
besjournals.onlinelibrary.wiley.com
Bayesian views of generalized additive modelling
Generalized additive models (GAMs) are a frequently used, flexible framework applied to many problems in statistical ecology. They are commonly used to incorporate smooth effects into models via s...
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Zachary Susswein @zsusswein.bsky.social · 18/01/2025
This rocks
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Reposted by Zachary Susswein
Kelly Charniga @kcharniga.bsky.social · 10/01/2025
New paper out yesterday on surveillance of the JN.1 variant of SARS-CoV-2 in France last year. Nice collaboration between private and public partners from public health and research! www.eurosurveillance.org/content/10.2...
eurosurveillance.org
Monitoring SARS-CoV-2 variants with complementary surveillance systems: risk evaluation of the Omicron JN.1 variant in France, August 2023 to January 2024
Background Early detection and characterisation of SARS-CoV-2 variants have been and continue to be essential for assessing their public health impact. In August 2023, Santé publique France implemente...
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Zachary Susswein @zsusswein.bsky.social · 06/01/2025
Spotted traveler-based genomic surveillance at Newark airport! I freaked out over how cool they were while my family gave me weird looks…..
A “stop outbreaks from taking off” banner advertising CDC’s sampling for traveler-based genomic surveillance
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Zachary Susswein @zsusswein.bsky.social · 21/11/2024
Thrilled this work is out! Truly a team product and a labor of love from all involved. www.cdc.gov/mmwr/volumes...
cdc.gov
Detection of Real-Time Changes in Direction of COVID-19 ..
This report describes trend categories and nowcasting that ..
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