Notes on Current Build (0.999…)¶
This site is currently a prototype, intended primarily to test functionality of the content delivery platform. We will begin populating module content soon. Please send any and all feedback to Hayden Fennell at hfennel at iu dot edu.
Known Issues¶
There are some issues with sidebar navigation on certain pages. This is due to some pages not being updated as we make rapid changes to content. A full source file rebuild will be performed (which will fix sidebar navigation) in the next build upload.
There are some missing images on a couple of the notebooks. These should be marked. These are images that were lost in the original notebooks. We are currently looking for replacements to fix the broken links.
The notebook/resource appendix is still under construction as content shifts. Please check back again for regular updates.
Content Update Schedule¶
This site will follow a weekly update schedule. Updates will be pushed and the build number will be updated each Friday afternoon. Please see the table below for the current content update schedule:
Module or Page |
Content Notes |
Delivery Date |
|---|---|---|
Module 0: Introduction to Scientific Computing |
Python basics, loops, data handling |
Final: 09/12/25 |
Module 1: Introduction to Biological Modeling |
The Modeling Workflow, Identifying meaningful hypothesis, model abstraction |
Final: 09/12/25 |
Module 2: Building Mathematical Models |
ODE Modeling, PDE Solution approaches and finite difference method, common equation types |
Final: 09/12/25 |
Module 3: Converting Math To Code |
Executing equations in code, model specification and parameterization, common simulation methodologies |
Final: 09/12/25 |
Module 4: Data Analysis |
Managing and cleaning data, visualization, model fitting, statistical methods |
Draft: 09/12/25 |
Module 5: Validity, Reliability, and Optimization |
Validation vs verification, methods, pairing models with experiment, model optimization |
Draft: 09/19/25 |
Module 6: Best Practices |
Suggested best practices for building successful models. What to anticipate during model setup, how to choose parameters from literature, common debugging strategies, and more. |
Draft: 09/26/25 |
Module 7: Biological background |
Biological background information needed to do the worked examples, summary exercises, and projects |
Draft: 10/17/25 |
Module 8: Worked Examples |
Draft: 10/03/25 |
|
Module 9: Summary Exercises |
Draft: 10/17/25 |
|
Module 10: Projects |
Draft: 10/24/25 |
Last Updated: 09/05/25