Note that the schedule below is preliminary and subject to change.

Schedule

Monday, 28 May

  • 8:00 – 8:30 Registration and welcome, AIMS lobby
    • If you have a laptop, please see Waseem in the IT office (Room 110) during registration to get set up with wifi access.
    • Please gather in the main lecture hall by 8:30.
  • 8:30 – 9:00 Introductions (all participants) and Motivation for Workshop
  • 9:00 – 10:00 Lecture: Public Health, Epidemiology, and Models
  • 10:00 – 10:30 Coffee break
  • 10:30 – 10:45 Organizational session: MMED Road Map and programme overview
  • 10:45 – 11:30 Lecture: Introduction to Thinking About Data I
  • 11:30 – 12:30 Lecture: Introduction to dynamic modeling of infectious diseases
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
    • If you still need wifi access, please see Jan in the IT office (Room 110) between 13:30 and 14:00 to get this set up.
  • 14:00 – 15:20 Exercise: Dynamical Fever and Model Worlds (in pairs) and discussion
  • 15:20 – 15:30 Discussion: Dynamical Fever and Model Worlds
  • 15:30 – 16:00 Tea and poster set-up
  • 16:00 – 17:00 Parallel sessions
    • Track A: Introduction to infectious disease data
    • Track B: Foundations of dynamic modeling
  • 17:00 – 18:00 Poster session I
  • 18:00 – 18:30 Dinner
  • 19:00 – 19:30 Social Activity: Ice breakers
  • 19:30 – 20:30 Social Activity: Card games: Bullsh!t and Casino

Tuesday, 29 May

  • 8:30 – 9:15 Lecture: (Hidden) assumptions of simple ODE models
  • 9:15 – 10:00 Lecture and Computer Session: Introduction to model implementation
  • 10:00 – 10:30 Coffee break
  • 10:30 – 12:30 Computer Session: R Tutorials I-III (All instructors); BScH break-out group (Borchering, Bellan)
    • When you have completed R Tutorials I-III, work on one of the following: Lab 1: ODE models (required) in R and Tutorial 4: Visualizing Infectious Disease Data in R (recommended)
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 14:45 Parallel sessions
    • Track A: Lecture: Introduction to Thinking About Data II
    • Track B: Lecture: Basic stochastic simulation models (Borchering)
  • 14:45 – 15:30 Parallel sessions
    • Track A: Computer Session: R Tutorials I-III, Lab 1: ODE models in R, or Tutorial 4: Visualizing Infectious Disease Data in R (as needed)
    • Track B: Computer Session: Basic stochastic simulation models cnt’d (Borchering)
  • 15:30 – 16:00 Tea and poster set-up
  • 16:00 – 17:00 Computer Session: R Tutorials continued (All instructors) & Mentoring session
  • 17:00 – 18:00 Poster session II
  • 18:00 – 18:30 Dinner
  • 19:00 – 20:00 Real-world example (optional lecture): Faculty Research Lecture #1

Wednesday, 30 May

  • 8:30 – 9:15 Lecture: Consequences of heterogeneity, and modeling options
  • 9:15 – 10:00 Computer Session: Lab: consequences of heterogeneity (All instructors)
  • 10:00 – 10:30 Coffee break
  • 10:30 – 11:00 Lecture: Work with models as a group on projector
  • 11:00 – 12:30 Computer Session: Harare data in groups of <4. (All instructors)
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 14:30 Computer Session: Harare/other data in same groups. (All instructors)
  • 14:30 – 15:30 Discussion: Harare data and spreadsheet work (Hargrove)
  • 15:30 – 16:00 Tea and poster set-up
  • 16:00 – 17:00 Parallel sessions
    • Track A: Formulating Research Questions A
    • Track B: Formulating Research Questions B
  • 17:00 – 18:00 Poster session III
  • 18:00 – 18:30 Dinner
  • 19:00 – 20:00 Real-world example (optional lecture): Faculty Research Lecture #2

Thursday, 31 May

  • 8:30 – 10:00 Parallel sessions
    • Track A: Lecture and Computer Session: Study Design and Analysis in Epidemiology: Where does modeling fit? and Lab: Study Design in Epidemiology
    • Track B: Exercise: Creating a model world to address a research question
  • 10:00 – 10:30 Coffee break
  • 10:30 – 12:00 Lecture: Introduction to statistical philosophy (Dushoff)
  • 12:00 – 12:30 Discussion: MMED research projects
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 15:30 Lecture: Participatory coding for Variability, Sampling Distributions, and Simulation Lecture (Bellan)
  • 15:30 – 16:00 Tea
  • 16:00 – 16:45 Lecture: Introduction to Likelihood
  • 16:45 – 18:00 Computer Session: Lab 5: Introduction to Likelihood Lab (All instructors)
  • 18:00 – 18:30 Dinner
  • 19:30 – 21:00 Social activity: Drumming

Friday, 1 June

  • 8:30 – 10:00 Parallel sessions
    • Track A: Lecture and Computer Session: Study Design and Analysis in Epidemiology II: RCT’s and Lab: Study Design for Clinical Trials
    • Track B: Exercise: Description of proposed model and assumptions
  • 10:00 – 10:30 Coffee break
  • 10:30 – 11:15 Lecture: Likelihood fitting and dynamic models, Part 1: Dynamic Model Fitting and Inference Robustness
  • 11:15 – 12:30 Computer session: MLE fitting of an SIR model to prevalence data (All instructors)
    • Additional info: Parameter transformation
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 15:30 Mentor presentations (Moderator: Dushoff)
  • 15:30 – 16:00 Tea
  • 16:00 – 17:00 MMED Projects (Moderator: Dushoff)
  • 17:00 – 18:00 Mid-session Feedback (Moderator: Hitchcock)
  • 18:00 – 18:30 Dinner
  • 19:30 – 21:30 Social Activity: Movie night (Outbreak)

Saturday, 2 June

  • 9:00 – 10:30 Lecture: Participatory coding of a dynamical model (Bellan, with Pulliam)
  • 10:30 – 11:00 First chance to sign up for project groups and Coffee break
  • 11:00 – 12:30 Exercise: Working with Git and GitHub
  • 12:30 – 14:00 Social Activity: Group lunch at Kalky’s
  • 14:00 – Free/working afternoon

Sunday, 3 June

  • Free day – optional group trip to Cape Point
    • We will leave at 10:00. Please meet in the AIMS lobby by 9:55.

Monday, 4 June

  • 8:30 – 9:15 Lecture: Doing Science (Williams)
  • 9:15 – 9:30 Organizational Session: Schedule and goals for the second week (Pulliam)
  • 9:30 – 10:00 Work Session: Project groups meet for the first time (All instructors)
  • 10:00 – 10:30 Coffee break
  • 10:30 – 11:30 Computer Session: Introduction to GitHub (Mentors)
  • 11:30 – 12:30 Computer Session: GitHub repos for group projects (All instructors)
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 15:30 Lecture: Likelihood fitting and dynamic models II (Dushoff)
  • 15:30 – 16:00 Tea
  • 16:00 – 17:30 Work Session & Mentoring Session (All instructors)
  • 18:00 – 18:30 Dinner
  • 19:00 – 20:00 Real-world example (optional lecture): Faculty Research Lecture #3

Tuesday, 5 June

  • 8:30 – 10:00 Lecture: Introduction to Monte Carlo Markov Chains (MCMC) (Bellan)
  • 10:00 – 10:30 Coffee break
  • 10:30 - 11:30 Computer session: MCMC fitting Labs 7-8 (All instructors)
  • 11:30 – 12:30 Work Session (All instructors)
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 15:30 Lecture: Working with databases: management and manipulation in R
  • 15:30 – 16:00 Tea
  • 16:00 – 17:30 Work Session & Mentoring Session (All instructors)
  • 18:00 – 18:30 Dinner
  • 19:00 – 20:00 Real-world example (optional lecture): Faculty Research Lecture #4

Wednesday, 6 June

  • 8:30 – 10:00 Reading Session (all groups) (Williams)
  • 10:00 – 10:30 Coffee break
  • 10:30 – 12:30 Work Session (All instructors)
    • 10:45 – 11:15 Optional Session: Resolving merge conflicts
    • 11:30 – 12:00 Optional Session: Data cleaning (Pulliam)
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 15:30 Work Session (All instructors)
    • 14:00 – 15:30 Optional Session: Model assessment (Dushoff)
  • 15:30 – 16:00 Tea
  • 16:00 – 17:30 Work Session & Mentoring Session (All instructors)
  • 18:00 – 18:30 Dinner
  • 19:00 – 20:00 Real-world example (optional lecture): Faculty Research Lecture #5

Thursday, 7 June

  • 8:30 – 10:00 Lecture: Modeling for policy (Williams)
  • 10:00 – 10:30 Coffee break
  • 10:30 – 12:30 Work Session (Mentors)
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 15:30 Work Session (All instructors)
  • 15:30 – 16:00 Tea
  • 16:00 – 17:30 Work Session & Mentoring Session (All instructors)
  • 18:00 – 18:30 Dinner

Friday, 8 June

  • 8:30 – 10:00 Work Session (All instructors)
  • 10:00 – 10:30 Coffee break
  • 10:30 – 12:30 Work Session (All instructors)
  • 12:30 – 14:00 Lunch break (Lunch is served from 12:30 to 13:00.)
  • 14:00 – 15:45 Final presentations
  • 15:45 – 16:00 Tea
  • 16:05 – 17:05 Final Feedback Session (Moderator: Hitchcock)
  • 17:15 – 17:45 Closing session
  • 18:00 – 18:30 Dinner
  • 21:00 – 23:00 Social Activity

Saturday, 9 June

  • Clinic officially ends on Friday, but there will be an optional group trip on Saturday.

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