Clinic Schedule
This is an archived version of the schedule from the DAIDD 2019 clinic (December 2019, Stellenbosch, South Africa). Some links may not work at this time.
- Slides are being made available via the DAIDD Dropbox Folder. The will also be added to the ICI3D Figshare Collection.
- Most tutorials and exercises are available through the ICI3D R package. Additional materials are linked from the Resources page.
Sunday
- 14:00 Check-in available for all participants
- 16:00-16:30 Welcome and registration ☺
- 16:30-17:00 What are we doing here? (John Hargrove) - Slide folder
- 17:00-17:30 Data, models and science (Jonathan Dushoff)
- 17:30-17:45 Working with the DAIDD Dropbox Folders and RStudio
- Make sure your slides are uploaded for tomorrow’s morning session!
- 17:45-18:30 Ice breakers (Masimba Paradza)
- Prep for round-robin introductions.
Monday
- 8:30-10:30 Research pitches (Moderator: John Hargrove)
- 10:30-11:00 Morning break
- 11:00 - 12:30 Intuitive aspects of dynamics and introduction to model worlds (Alex Welte) - Slide folder
- 12:30-14:00 Lunch break
- Introduction to Mont Fleur
- 14:15-14:45 Overview of research plan development and structure (Jonathan Dushoff) #RP - Slide folder
- 14:45-15:40 Small group session: research questions for modeling projects (All faculty) #RP
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15:40-16:00 Afternoon break
- 16:00-17:30 Dynamical Fever - computer exercise and discussion (Reshma Kassanjee) - Slide folder
- 17:30-18:00 Dynamical Fever - model description, modeling terminology, and the DAIDD glossary (Jonathan Dushoff) - Download the taxonomy
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18:00 Welcome reception
- Evening Draft research questions [Task 3p]
Tuesday
- 8:45-9:00 Monday recap (Reshma Kassanjee) - DAIDD roadmap - recap folder
- 9:00-10:30 The SIR model family - conceptual framework and introduction to difference and differential equations (Cari van Schalkwyk and John Hargrove) - Slide folder, Exercise
- Excel spreadsheet in Code folder
-
10:30-11:00 Morning break
- 11:00-11:45 Writing exercise: formulating research questions for modeling projects (Cari van Schalkwyk) #RP - Slide folder
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11:45-12:30 Simple individual-based models (Jonathan Dushoff) - Slide folder, Source for slides
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12:30-14:00 Lunch break
- 14:00-15:00 Simple individual-based models (continued) - Google sheet
- 15:00-16:00 Modeling in practice: The life cycle of a modeling project, from conception to publication (John Hargrove) - Slide folder
- 16:00-16:30 Afternoon break
- Before 16:30 Post revised research questions [Task 3]
- 16:30-18:00 Exercise: Creating a model world to address a research question Alex Welte #RP - Slide folder
- 20:00-21:00 Working session
Wednesday
- 8:30-8:40 Tuesday recap (Cari van Schalkwyk) - recap folder
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8:40-9:00 Faculty research presentations (Cari van Schalkwyk) - Research talks folder
- 9:00-10:30 Stochastic simulation models (Reshma Kassanjee)- Slide folder, Code folder
-
10:30-11:00 Morning break
- 11:00-12:30 Small-group session: matching models to questions (All faculty) #RP - Group assignments
-
12:30-14:00 Lunch break
- 14:00-15:30 Impact of contact patterns, consequences of heterogeneity, and modeling options (Jonathan Dushoff) - Slide folder
-
15:30-16:00 Afternoon break
- 16:00-16:30 Work session #RP - practice diagram, description
-
16:30-18:00 Writing exercise - description of proposed model and assumptions (Alex Welte) #RP - Group assignments
- 20:00-21:00 Mid-session feedback (Masimba Paradza)
Thursday
- 8:30-8:50 Regroup after feedback (John Hargrove)
- 8:50-9:00 Wednesday recap (Alex Welte) - recap folder
- 9:00-10:30 Use of models in public health decision-making: Dengue vaccination roll-out (Carl Pearson) - Slides
- Related papers: Flasche et al. 2016, Hladish et al. 2016
-
10:30-11:00 Morning break
- 11:00-12:30 Models and data: introduction to model fitting (Cari van Schalkwyk)
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12:30-14:00 Lunch break
- 14:00-15:30 Model fitting tutorial (John Hargrove) - Tutorial notes
- (Tutorial wrapup by Jonathan Dushoff) - Boxcar Model Slides
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15:30-16:00 Afternoon break
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16:00-17:00 Exercise: Planning your approach #RP - Planning document
- 17:00-18:00 Writing exercise & mentored working session (All faculty) #RP
- 20:00-21:00 Social activity (Game night)
Friday
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8:30-10:00 Group hike
- 10:30-11:00 Morning break
- Group Photo;
- By 11 Post model description [Task 5]; Revise model diagram [Task 4f] if desired in time for working session
- 11:00-11:20 Thursday recap (Jonathan Dushoff)
- 11:20-12:30 Mentored working session (All faculty) #RP Group assignments
-
12:30-14:00 Lunch break
- 14:00-15:00 Model evaluation and comparison (Jonathan Dushoff) - Slide folder
- 15:00-15:30 Model-based inference and the bigger picture (Carl Pearson) - Slide folder
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15:30-16:00 Afternoon break
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16:00-18:00 Writing exercise - revise based on feedback and plan for moving forward (including identified resources and potential collaborators) #RP - instructions
- Evening Post final research plan [Task 7]
Saturday
- Be sure to submit your final research plan before Breakfast
- 8:00-8:50 Breakfast
- Be sure to check out by 8:45
- 8:50-9:00 Friday recap (John Hargrove)-
- Suppressed this year to give more time to participants; also, Dushoff illness
- 9:00-10:00 Discussion of research plans/proposals (Moderator: Cari van Schalkwyk) #RP
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10:00-10:15 Short break
- 10:15-11:15 Discussion of research plans/proposals (Moderator: Cari van Schalkwyk) #RP
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11:15-11:30 Short break
- 11:30-12:40 Final feedback session (Masimba Paradza)
- 12:40-13:00 Closing session (John Hargrove)
- Lunch
- 14:00 Departure from Mont Fleur ☹