CDCgov / CDCgov/DynODE

Using `bayeux` to organize `numpyro` models and access features

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#244 6 comments 1 reaction 0 assignees View on GitHub

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enhancement wontfix
Dominant language
Python
Stars
13
Forks
3
Avg merge
19h 43m
Merged PRs (30d)
1

Description

@dylanhmorris has put me onto bayeux. I think this would be a useful addition.

bayeux has some handy features:

  • A from_numpyro method that coverts a numpyro model into a bayeux model object.
  • bayeux models have a debug mode https://jax-ml.github.io/bayeux/debug_mode/ which covers #197 and makes #199 obsolete.
  • bayeux models can be cast to other libraries, e.g. optimistix which can find their MAP values (which can be handy).

Contributor guide

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First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start with bayeux’s from_numpyro method and the debug-mode and model-casting documentation linked in the issue. Review how DynODE currently organizes NumPyro models, then define and verify the integration scope, including whether it addresses #197 and makes #199 unnecessary.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
machine-learning
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
20/100

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