An examples/notebooks/ directory with a handful of Jupyter notebooks
walking through end-to-end fitting workflows would lower the barrier for
new users. Each notebook would cover one workflow on a small problem
from the existing example corpus: load the model, define the data and
any constraints, run the fit, visualize the result.
Reasonable starter coverage (suggestions, not prescriptive):
- A quantitative-only ODE fit
- A BNGL rule-based-model fit
- A fit combining quantitative and qualitative data
- A profile-likelihood UQ workflow
- An adaptive-MCMC workflow
The notebooks should reference example problems already in examples/
and run against the standard install.
An
examples/notebooks/directory with a handful of Jupyter notebookswalking through end-to-end fitting workflows would lower the barrier for
new users. Each notebook would cover one workflow on a small problem
from the existing example corpus: load the model, define the data and
any constraints, run the fit, visualize the result.
Reasonable starter coverage (suggestions, not prescriptive):
The notebooks should reference example problems already in
examples/and run against the standard install.