I’m an infectious disease researcher interested in real-time analysis, forecasting, semi-mechanistic modelling, and open source tool development. More on my research interests here.

NOW

• Mostly working @CDC Centre for Forecast and Outbreak Analytics;
• Also @Epiforecasts (part of the London School of Hygiene and Tropical Medicine);
• ⭐ Contributing to the epinowcast community developing tools and methods for current surveillance of infectious disease and preparing for future outbreaks;
• 🧻 Currently working on:
  • Estimating delay distributions accounting for common biases
  • Developing a workbench for real-time and outbreak infectious disease modelling
  • 😴 🔌 🐑

BIO

• 🏢 I’m currently working with CDC Centre for Forecast and Outbreak Analytics and at the London School of Hygiene and Tropical Medicine
• 🏢 2020-2023: Postdoc in real-time modelling of infectious disease w/ Sebastian Funk at the London School of Hygiene and Tropical Medicine
• 🏢 2017-2019: Data Scientist at Funding Circle
• 📜 2016-2019: PhD at the University of Bristol on modelling the use of the BCG vaccine in the UK
• ⚙️ I use daily: R, stan
• 🏗️ I like to perform analysis using novel models on interesting data and generalise those approaches into software 📦s
• 🌍 I’m mostly active within the epinowcast community
• 🌱 (Very slowly) Learning all about Julia and Turing.jl
• 📘 Reading: Design Patterns
• 💬 Ping me about statistical modelling of infectious diseases, real-time analysis of infectious diseases, estimating transmission dynamics in real-time, and team science opportunities
• 📫 Reach me: contact@samabbott.co.uk