Zachary Susswein

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

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/...

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...

#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...

Pupatella is going to hunt you down for this take

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)

FYI the doi link is showing as not found

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.

🚀 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

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

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...

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....

This rocks

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...

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...

I wish! They didn’t want to swab us. Not sure what the sampling criteria is but maybe they had enough from our flight?

A “stop outbreaks from taking off” banner advertising CDC’s sampling for traveler-based genomic surveillance

Spotted traveler-based genomic surveillance at Newark airport! I freaked out over how cool they were while my family gave me weird looks…..

Woo congrats!

Detection of Real-Time Changes in Direction of COVID-19 .. This report describes trend categories and nowcasting that ..

Thrilled this work is out! Truly a team product and a labor of love from all involved.

www.cdc.gov/mmwr/volumes...