Estimating the current size of the 2026 DRC Bundibugyo virus outbreak: a joint Bayesian re-analysis of the McCabe et al. report w/ @kathsherratt.bsky.social Sam Brand and @sbfnk.bsky.social
Sebastian Funk
@sbfnk.bsky.social
Professor of Infectious Disease Dynamics at @lshtm.bsky.social. Developing methods for making sense of outbreak data. Outside of work trying to make sense of the rest of the world.
🎓 One last PhD studentship on offer on health analytics and modelling, jointly between @hpruham.bsky.social and @hprurespinf.bsky.social. Real-time use of data from household studies to inform pandemic and epidemic preparedness, with Anne Cori, @seabbs.bsky.social and Chris Overton. Link ↓
Every week ~2,000 new preprints appear on medRxiv and bioRxiv. Here's a tool that matches them to journals: given a journal, it shows which recent preprints fit its scope. Given a preprint, it predicts where it'll end up. Feedback welcome! preprints.epiforecasts.io
Preprint Match
preprints.epiforecasts.io
Really enjoyed this thought-provoking workshop this week at @cmmid-lshtm.bsky.social @lshtm.bsky.social on evaluation & responsibility in infectious disease modelling. Brilliantly organised and led by @kathsherratt.bsky.social, with Erica Thompson. Great discussions on both practice and training.
Kath Sherratt@kathsherratt.bsky.social · 5mo ago<< How do we evaluate infectious disease modelling work, and what does that imply for modelling responsibly? >> If that sounds interesting, you're very welcome to join us! * Workshop: Evaluation & Responsible Modelling * 24 March 2026 | LSHTM, London More @ epiforecasts.io/responsible-...
Really great day and exciting to see the range of research happening across @hpruham.bsky.social. Thanks to @ukhsa.bsky.social for hosting and everyone who presented!
HPRU-HAM@hpruham.bsky.social · 5mo agoGreat to hear from all of our PhD students on plans for their respective #HPRU-HAM projects. This year, five students have started at @lshtm.bsky.social and @imperialcollegeldn.bsky.social across our three research themes. More details can be found here: www.lshtm.ac.uk/hpru-ham
Great talk on composable infectious disease modelling. Making real-time outbreak modelling more principled and flexible has been a long-standing challenge, and Sam has been leading the charge on solving it. With a growing group of people keen on this it feels like we're finally getting somewhere.
Sam Abbott@seabbs.bsky.social · 6mo agoI had a great time talking at the Juniper seminar series last week about composable infectious disease models. Some very good discussion after the talk. The recording is now up! youtu.be/FQYOqGnbJWA?...
PhD position (London, UK) Real-time modelling of infectious disease outbreaks. with @sbfnk.bsky.social @anne-cori.bsky.social @seabbs.bsky.social at @epiforecasts.io @cmmid-lshtm.bsky.social More details: http://iddjobs.org/jobs/2440
Two more fully funded PhDs in real-time infectious disease modelling & forecasting — developing methods for operational use by @ukhsa.bsky.social and others in outbreak response. UK home students, starting April or September 2026. www.lshtm.ac.uk/study/fees-a...
PhD Studentships in Health Analytics and Modelling | LSHTM
The London School of Hygiene & Tropical Medicine (LSHTM), Imperial College London and the UK Health Security Agency (UKHSA) are pleased to invite applications for two PhD studentships in real-time
lshtm.ac.uk
💉 Our annual lecture will be given by Prof Caroline Trotter, who will explore work estimating the #PublicHealth impact of vaccination of Gavi & discuss its implications for #vaccine policy 🗓️ Thursday 27 November, 17:30 GMT 📍 LSHTM | Online Details ⬇️ www.lshtm.ac.uk/newsevents/e...
👋Don't miss LSHTM research funding opportunities! We have 2 new PhD #studentships for home fee students as part of @nihr.bsky.social Health Protection Research Units for #Vaccines & Immunisation, & #InfectiousDisease modelling. Find out more & apply 👇 www.lshtm.ac.uk/study/fees-a...
These should be pretty great I think! Want some more background on the kind of fun methods these will build off? Open source course here: nfidd.github.io/sismid/
Nowcasting and forecasting infectious disease dynamics - SISMID – NFIDD SISMID
Nowcasting and forecasting infectious disease dynamics - SISMID
nfidd.github.io
IDDjobs@iddjobs.org · last yr.2 PhD positions (London, UK) In real-time infectious disease modelling with @@sbfnk.bsky.social @@anne-cori.bsky.social @@seabbs.bsky.social at @@lshtm.bsky.social @@imperialcollegeldn.bsky.social @@ukhsa.bsky.social More details: http://iddjobs.org/jobs/2336
2 PhD positions (London, UK) In real-time infectious disease modelling with @@sbfnk.bsky.social @@anne-cori.bsky.social @@seabbs.bsky.social at @@lshtm.bsky.social @@imperialcollegeldn.bsky.social @@ukhsa.bsky.social More details: http://iddjobs.org/jobs/2336
Exciting HPRU PhD opportunities (home fees only) at LSHTM with co-supervision at Imperial and UKHSA: www.lshtm.ac.uk/study/fees-a...
PhD studentships in real-time infectious disease modelling | LSHTM
The London School of Hygiene & Tropical Medicine (LSHTM), Imperial College London and the UK Health Security Agency (UKHSA) are pleased to invite applications for two PhD studentships in real-time
lshtm.ac.uk
So disappointing to still see papers in big publisher journals with data/code links that don't work (e.g. private github repos). If editors and reviewers can't even be bothered to do a minimal check that the linked resource exists, what does that imply for the integrity of the whole review process?
Really enjoyed giving a talk at the @rki.de Colloquium in Berlin today. Slides are at epiforecasts.io/slides/rki_2...
epiforecasts.io
Latest out in Epidemics: "Collaborative forecasting of influenza-like illness in Italy: The Influcast experience" www.sciencedirect.com/science/arti... 👇
Collaborative forecasting of influenza-like illness in Italy: The Influcast experience
Collaborative hubs that integrate multiple teams to generate ensemble projections and forecasts for shared targets are now regarded as state-of-the-ar…
sciencedirect.com
The new epidist release just dropped which includes support for the marginal model as well as lots of other goodies epidist.epinowcast.org/news/index.h... TLDRP: its 20-lots faster depending on number of stratifications in the data and not approximate.
Changelog
epidist.epinowcast.org
Sam Abbott@seabbs.bsky.social · last yr.A new minor release for primarycensored should be on a CRAN server near you shortly. primarycensored.epinowcast.org/news/index.h...
I was speaking about the epinowcast package, ecosystem, and community with a little bit of a pitch for modelling in Julia at the end. If any of this work takes your interest this PhD on delay estimation may interest you. bsky.app/profile/iddj...
IDDjobs@iddjobs.org · last yr.PhD position (London, UK) Improving Estimation and Analysis of Epidemiological Delays for Infectious Disease Outbreaks with @sbfnk.bsky.social @anne-cori.bsky.social @seabbs.bsky.social at @cmmid-lshtm.bsky.social @lshtm.bsky.social... More details: http://iddjobs.org/jobs/2261
PhD position (London, UK) Machine Learning for infectious disease forecasting during epidemics and pandemics with @sbfnk.bsky.social Daniela de Angelis at @cmmid-lshtm.bsky.social @lshtm.bsky.social @epiforecasts.io More details: http://iddjobs.org/jobs/2264
PhD position (London, UK) Improving Estimation of Reproduction Numbers in Dynamic Outbreak Contexts with @anne-cori.bsky.social @sbfnk.bsky.social Edwin van Leeuwen at @imperial-jameel.bsky.social More details: http://iddjobs.org/jobs/2263
PhD position (London, UK) Improving Estimation and Analysis of Epidemiological Delays for Infectious Disease Outbreaks with @sbfnk.bsky.social @anne-cori.bsky.social @seabbs.bsky.social at @cmmid-lshtm.bsky.social @lshtm.bsky.social... More details: http://iddjobs.org/jobs/2261
PhD position (London, UK) Improving Infectious Disease Forecasts and Forecast Evaluation with @sbfnk.bsky.social @anne-cori.bsky.social Edwin van Leeuwen at @cmmid-lshtm.bsky.social @lshtm.bsky.social @epiforecasts.io More details: http://iddjobs.org/jobs/2262
New blog post! I show how to marginalise discrete variables from Bayesian ecological models in Stan and how to recover their posterior distributions after estimation. I cover occupancy and N-mixture models using multiple parameterisations and model types. quantecol.com.au/blog/margina...
Quantecol - Marginalisation
quantecol.com.au
It's rare to have so many PhD studentships open at the same time that are fully funded at the project level - do apply if any of these strike your interest (unfortunately, UK home fee eligible candidates only). I'll describe the 3 projects that involve me / @epiforecasts.io in a bit more detail.
Adam Kucharski@adamjkucharski.bsky.social · 2y ago11 PhD studentships now available in Health Analytics, Epidemic Modelling and Health Economics, jointly between LSHTM, Imperial and UKHSA, to start autumn 2025. Deadline 7 March: www.lshtm.ac.uk/study/fees-a...
Amazing opportunity: a few PhD positions in Health Analytics, Epidemic Modelling and Health Economics available with myself and colleagues from @mrc-outbreak.bsky.social, @ccmid.bsky.social and @ukhsa.bsky.social. Please apply/circulate widely!
Senior post at LSHTM closes in 2 days (31st Jan). Do apply if you want to lead/join a department focussed on infectious disease epi and dynamics. Unrelated: the UK doesn’t have executive orders.
Dr Roz Eggo@rozeggo.bsky.social · 2y agoOpen Recruitment of a Full Professor and Head of the Department of Infectious Disease Epidemiology & Dynamics: jobs.lshtm.ac.uk/vacancy.aspx... Good research culture, friendly colleagues, inspiring public health leaders, great connections across epi & PH, & very dedicated students. Join!
This is a great post, and every point in there applies to the assessment of infectious disease forecasts.
Magnus Ross@magnusar.bsky.social · 2y agoI wrote a slightly controversially titled blog post about benchmarking for time series models. Often the benchmarks don't align with real world problems, which I think is slowing progress! magnusross.github.io/posts/tsf_benchmarks/
🚀 We're hiring! Professor / Head of Department position at @lshtm.bsky.social
Dr Roz Eggo@rozeggo.bsky.social · 2y agoOpen Recruitment of a Full Professor and Head of the Department of Infectious Disease Epidemiology & Dynamics: jobs.lshtm.ac.uk/vacancy.aspx... Good research culture, friendly colleagues, inspiring public health leaders, great connections across epi & PH, & very dedicated students. Join!
Open Recruitment of a Full Professor and Head of the Department of Infectious Disease Epidemiology & Dynamics: jobs.lshtm.ac.uk/vacancy.aspx... Good research culture, friendly colleagues, inspiring public health leaders, great connections across epi & PH, & very dedicated students. Join!
Job Opportunity at LSHTM: Professor (and Head of Department)
The London School of Hygiene & Tropical Medicine (LSHTM) is one of the world’s leading public health universities. Our mission is to improve health and health equity in the UK and worldwide; working i...
jobs.lshtm.ac.uk