Multi-Agent Models in Biomedical Simulation
Prof. John H, Holmes, PhD
DPEI – Department for Piostatistics, Epidemiology and Informatics | University of Pennsylvania
Dal 08/07/2019 al 10/07/2019
09:30 – 17:00
Day 1: General Introduction to agent-based modeling and NetLogo
Morning Course overview and introduction
Agent-based modeling (Ch. 1)
The NetLogo platform (Ch 2.)
Afternoon Creating an ABM with NetLogo
The ODD modeling framework (Ch. 3)
The NetLogo programming language (Ch. 4)
Example: AIDS model, found in the NetLogo Models Library, Sample Models/Social Science folder.
Exercise: Implementing a simple model: Food availability
Reading: Chiaccio F, et al.: Agent-based modeling of the immune system: NetLogo, a
promising framework. BioMed Research International, Article ID 907171, 2014.
Day 2: Contagion and infectious disease modeling
Morning Model design concepts I
Emergence (Ch. 7-8)
Observation (Ch. 9)
Sensing (Ch. 10)
Adaptive behavior (Ch. 11)
Afternoon Model design concepts II
Prediction (Ch. 12)
Interaction (Ch. 13)
Scheduling (Ch. 14)
Stochasticity (Ch. 15)
Collectives (Ch. 16)
Exercise: Simulating an influenza outbreak using a common contagion model
Reading: Cooley P, et al.: The role of subway travel in an influenza epidemic: A New York City simulation. Journal of Urban Health: Bulletin of the New York Academy of Medicine 88(5):982-994, 2011.
Day 3: Built-environment interactions
Morning Pattern-oriented matching
Patterns for model structure (Ch. 17-18)
Theory development (Ch. 19)
Parameterization and calibration (Ch. 20)
Afternoon Model analysis and course wrap-up
Analyzing and understanding agent-based models (Ch. 21-22)
Sensitivity, uncertainty and robustness (Ch. 23)
Incorporating geography in an ABM
What next? (Ch. 24)
Example: Pollution model, found in the NetLogo Models Library, Sample Models/Urban Suite folder.
Exercise: Environmental modeling with NetLogo
Reading: Yang Y and Diez-Roux AV: Using an agent-based model to simulate children’s active travel to school. International Journal of Behavioral Nutrition and Physical Activity 10(67): 1-8, 2013.
Dept. for Electrical, computer and biomedical engineering.
Via Ferrata, 5 – Pavia