Please register for the workshops through the online registration for the conference.
The workshops are offered free of charge and only for ICAHS4 participants.

Advanced techniques for evaluating surveillance using disease spread modelling

Workshop leader:Dr Stefan Widgren, National Veterinary Institute, Sweden
Other teachers:Dr Thomas Rosendal, National Veterinary Institute, Sweden
Date: 10 November 2020

Topics to be covered: Mathematical models and computer simulations can be used to study the performance of disease monitoring and surveillance strategies. In this workshop, we will use the R package SimInf and present how to specify a disease spread model and integrate surveillance within the model. The framework can incorporate both within-herd infection dynamics and between-herd transmission from, for example, animal movements or spatial disease transmission. This allows us to efficiently evaluate surveillance in the presence of a complex population structure and disease spread and contrast different design choices. The participants will learn how to use the model specification language in SimInf to define and simulate infectious disease spread models. Additionally, we will introduce some more advanced programming in R to achieve this combination of disease spread and surveillance. The workshop will consist of the following parts:

  1. Specification of a within- and between-herd transmission model. The participants will be introduced to C code and explore the possible outputs from the model and how to interpret them.
  2. Incorporation of animal- and herd-level testing. This will allow participants to explore and compare various surveillance strategies.
  3. Introduction to debugging techniques. Inevitable, coding mistakes are made that need to be tracked down – we will demonstrate tools to debug a model.

Data-driven surveillance: supporting decision making with routinely collected data

Workshop leader: Fernanda Dórea, Swedish National Veterinary Institute
Date:10 November 2020

Topics to be covered: This workshop will give an overview of the use of routinely collected animal health data to inform surveillance strategies. In particular, the development of frameworks for practical implementation of syndromic surveillance (the use of continuous data streams for early detection of potential outbreak signals) will be reviewed with practical, hands-on examples. 

After the workshop, participants should be able to:

  • Identify practical requirements that data sources need to meet to be used in automated data-analysis systems,
  • Understand how to set up frameworks for automated analysis and visualization of data, from data acquirement, to analysis and delivery of outputs to decision-makers
  • Comprehend commonly used statistical methods used for syndromic surveillance
  • Map the data visualization needs for outputs of the system, and choose among alternative tools that they can select to start building a system interface (the workshop will give an overview of options, but not train participants on any specific tools, due to time constraints).

Generic risk assessment for animal disease incursion

Workshop leader: Clazien de Vos (WBVR, NL)
Other teachers: Emma Snary (APHA, UK), Cecilia Hultén (SVA, SE), Helen Roberts (Defra, UK), Rachel Taylor (APHA, UK)
Date: 10 November 2020

Topics to be covered: This workshop will introduce the participants to the current state of the art of generic risk assessment in the veterinary field. Topics that will be addressed include different modelling approaches ranging from qualitative to quantitative, data needs for generic risk assessment and the contribution of generic risk assessment tools to the design risk-based surveillance. 

An outcome-based method to compare results from non-harmonised control/surveillance programmes – the tool, data requirements and potential generalisation

Workshop leader: Jenny Frössling
Other teachers: Aurélien Madouasse, Annika van Roon, Estelle Ågren, Gerdien van Schaik
Date: 10 November 2020

Topics to be covered: Background to the need of outcome-based methods for the assessment of freedom from animal infections (including presentation of the STOC-free project and the SOUND-control COST action), explanation of the disease freedom concept, presentation of a newly developed method, description of data requirements, input by workshop participants for continued work to generalise the method to more infections and species.

Supercharging surveillance data on the web – tips, tools and case studies

Workshop leader: Dr Uli Muellner (EPI-interactive)
Other teachers: Dr John Grewar (jDATA), Dr Petra Muellner (EPI-interactive) 
Date: 10 November 2020
Workshop flyer:download here

Topics to be covered:Session 1: Introduction to interactive, web-based data visualisation to support stakeholder engagement and data dissemination for animal health surveillance; 

  • Case study: LAB/savi – a veterinary diagnostic laboratory data dashboard, incl. tools for genetic analysis (University of Minnesota)
  • Case study: Freedom from reporting – data dashboards to disseminate results of New Zealand health surveys (Ministry of Health, Health Promotion Agency)
  • Case Study: Global surveillance depiction – data dashboards depicting international equine disease occurrence to facilitate equine movement and disease control

Session 2: Good practice in designing and building effective surveillance dashboards, incl. tips and tricks for stakeholder engagement and how to navigate the tech jungle (data sources, APIs, custom vs. off-the-self tools, cloud hosting)  

Session 3: Add-on’s: Open source technology encourages development and here we demonstrate some of the available tools that can be integrated into web-based dashboard development to make it easy, fun and fast to depict surveillance information.  

Session 4: (optional) Building an R Shiny dashboard for the web – we will demonstrate best practices on how to get started and which tools to use; participants can get hands-on in this session