CDCgov/ww-inference-model

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An in-development R package and a Bayesian hierarchical model jointly fitting multiple "local" wastewater data streams and "global" case count data to produce nowcasts and forecasts of both observations

Stars: 32
Forks: 10
Open beginner issues: 0
Indexed issues: 76

Dominant language: R
License: Apache-2.0
Last GitHub push: Jul 26, 2026
Latest indexed: Sep 20, 2026
Contributing guide: Contributing guide
Code of conduct: No code of conduct
Beginner labels: help wanted good first issue
PR merge metrics: No merged PRs in 30d

Beginner friendly Everything

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76 open issues indexed

Make error and warning assertions in test suite more specific Open

CDCgov/ww-inference-model#280 · 1 assignee · Opened Jul 25, 2026
Fix incorrect close parenthesis in preprocessing Open

bug

Difficulty 3/5 1-2 days Newbie friendliness 35/100

CDCgov/ww-inference-model#279 · Opened Jul 25, 2026
Better integrate model definition into documentation website Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

CDCgov/ww-inference-model#264 · Opened Dec 20, 2024
Expanding spatial vignette to include evaluations for ww and site hospital admissions. Open

spatial-ww

CDCgov/ww-inference-model#253 · 1 assignee · Opened Nov 23, 2024
Remove `sigma_rt` from spatial model since it isn't being used Open

spatial-ww

Difficulty 3/5 1-2 days Newbie friendliness 25/100

CDCgov/ww-inference-model#243 · Opened Nov 4, 2024
Allow for a tolerance in `assert_daily_data()` to enable NAs in count data Open

priority

Difficulty 3/5 1-2 days Newbie friendliness 38/100

CDCgov/ww-inference-model#233 · Opened Oct 24, 2024
Enable fitting of multiple admissions catchment areas with a user supplied mapping of subpopulations Open

CDCgov/ww-inference-model#223 · 1 assignee · Opened Oct 18, 2024
Allow model to handle weekly (or any specified interval) count data Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

CDCgov/ww-inference-model#222 · Opened Oct 18, 2024
Windows error with initial compiling Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

CDCgov/ww-inference-model#217 · 3 comments · Opened Oct 16, 2024
Forecast hospitalizations using only wastewater data Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

CDCgov/ww-inference-model#216 · 5 comments · 1 reaction · Opened Oct 15, 2024
Merge `main` into `spatial-main` Open

priority spatial-ww

CDCgov/ww-inference-model#215 · 1 assignee · Opened Oct 15, 2024
Suppress stan warnings and print warning within `wwinference()` if convergence diagnostics fail? Open

discussion

Difficulty 4/5 3-5 days Newbie friendliness 35/100

CDCgov/ww-inference-model#214 · Opened Oct 15, 2024
Windows workaround in `compile_model` Open

discussion

Difficulty 4/5 3-5 days Newbie friendliness 30/100

CDCgov/ww-inference-model#213 · 1 comment · Opened Oct 15, 2024
Constrain `dur_shedding` to be greater than `t_peak` Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

CDCgov/ww-inference-model#211 · Opened Oct 7, 2024
Test rendering the vignette on mac and Windows in CI Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

CDCgov/ww-inference-model#206 · 2 comments · Opened Oct 2, 2024
Add `R CMD check` on macOS to CI Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

CDCgov/ww-inference-model#204 · 1 comment · Opened Oct 2, 2024
Make reference subpopulation configurable by the user Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

CDCgov/ww-inference-model#196 · Opened Sep 30, 2024
`import` or qualify namespace for `desc` and `formalArgs` Open

Difficulty 2/5 1-3 hours Newbie friendliness 48/100

CDCgov/ww-inference-model#195 · Opened Sep 30, 2024
Improve error messaging for the various no wastewater cases Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

CDCgov/ww-inference-model#194 · 1 reaction · Opened Sep 30, 2024
Unable to find include files when running through the worked example Open

help wanted

Difficulty 4/5 3-5 days Newbie friendliness 30/100

CDCgov/ww-inference-model#187 · 20 comments · Opened Sep 27, 2024
Meta v1.2 Scope out needs to submit package to cran Open

meta

CDCgov/ww-inference-model#186 · 1 comment · 1 assignee · Opened Sep 27, 2024
Add subpopulation count data to model/ `generate_simulated_data()` function Open

new feature priority

Difficulty 3/5 1-2 days Newbie friendliness 35/100

CDCgov/ww-inference-model#185 · Opened Sep 24, 2024
Fix low ESS warning messaging in CI Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

CDCgov/ww-inference-model#176 · Opened Sep 19, 2024
Exploring scenarios for when IID inference model fails when compared to others Open

spatial-ww

CDCgov/ww-inference-model#173 · 1 assignee · Opened Sep 18, 2024
Add plotting functions to spatial-main Open

good first issue help wanted spatial-ww

Difficulty 3/5 1-2 days Newbie friendliness 35/100

CDCgov/ww-inference-model#172 · 1 reaction · Opened Sep 17, 2024
Improve package provided GI using `primarycensoreddist` Open

new feature

Difficulty 4/5 3-5 days Newbie friendliness 42/100

CDCgov/ww-inference-model#166 · 1 comment · 1 reaction · Opened Sep 17, 2024
Only allow users to get "predicted_counts" and "global_rt" if not fitting to wastewater data Open

new feature

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

CDCgov/ww-inference-model#162 · Opened Sep 12, 2024
Add error message for plotting functions Open

new feature

CDCgov/ww-inference-model#161 · 1 assignee · Opened Sep 12, 2024
Making a simulation study script for spatial ww model Open

spatial-ww

CDCgov/ww-inference-model#157 · 1 comment · 1 assignee · Opened Sep 10, 2024
Caution box render issue on website Open

bug

Difficulty 2/5 1-3 hours Newbie friendliness 32/100

CDCgov/ww-inference-model#155 · 1 comment · 1 reaction · Opened Sep 10, 2024
Discuss future of MCMC snapshot test in `test_ww_model.R` Open

Difficulty 5/5 Over a week Newbie friendliness 12/100

CDCgov/ww-inference-model#145 · 1 comment · Opened Sep 5, 2024
Add GH actions to automatically commit autofixes from `pre-commit` Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

CDCgov/ww-inference-model#139 · 6 comments · Opened Sep 2, 2024
Vignette showing how to modify the model Open

discussion user feedback

Difficulty 4/5 3-5 days Newbie friendliness 30/100

CDCgov/ww-inference-model#138 · Opened Sep 1, 2024
Vignette showing how to evaluate the added value of data Open

new feature

Difficulty 5/5 Over a week Newbie friendliness 25/100

CDCgov/ww-inference-model#137 · Opened Sep 1, 2024
Come up with a way to handle if `sum(site_pop) > total_pop` Open

new feature

CDCgov/ww-inference-model#136 · 2 comments · 1 assignee · Opened Sep 1, 2024
Clarify language on "local" vs "global" variables Open

discussion user feedback

Difficulty 4/5 3-5 days Newbie friendliness 25/100

CDCgov/ww-inference-model#132 · Opened Sep 1, 2024
Clarify vignette outlier handling Open

user feedback

Difficulty 2/5 Half a day Newbie friendliness 48/100

CDCgov/ww-inference-model#131 · Opened Sep 1, 2024
Simple installation vignette Open

new feature

Difficulty 3/5 1-2 days Newbie friendliness 45/100

CDCgov/ww-inference-model#129 · 2 comments · Opened Sep 1, 2024
Write additional tests for postprocessing Open

good first issue help wanted

CDCgov/ww-inference-model#124 · 1 assignee · Opened Aug 30, 2024
Vignette with example pipeline fit to publicly available data Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

CDCgov/ww-inference-model#116 · 1 reaction · Opened Aug 28, 2024
Add tests to make sure all function args are in fact configurable Open

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

CDCgov/ww-inference-model#115 · Opened Aug 28, 2024
Set up functionality to use pathfinder (for initialization or prototyping) Open

new feature

Difficulty 4/5 3-5 days Newbie friendliness 25/100

CDCgov/ww-inference-model#110 · 2 comments · Opened Aug 27, 2024
`get_ind_m` behavior and unit tests Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

CDCgov/ww-inference-model#109 · Opened Aug 27, 2024
Exclude data beyond forecast date automatically? Open

discussion user feedback

Difficulty 5/5 Over a week Newbie friendliness 25/100

CDCgov/ww-inference-model#101 · Opened Aug 26, 2024
Document package use cases Open

new feature

Difficulty 3/5 1-2 days Newbie friendliness 45/100

CDCgov/ww-inference-model#94 · Opened Aug 26, 2024
Allow the user to pass in weekly count data Open

new feature user feedback

Difficulty 5/5 Over a week Newbie friendliness 20/100

CDCgov/ww-inference-model#93 · 3 comments · Opened Aug 26, 2024
Vignette showing how to troubleshoot convergence diagnostics Open

new feature user feedback

Difficulty 3/5 1-2 days Newbie friendliness 45/100

CDCgov/ww-inference-model#92 · 1 comment · Opened Aug 26, 2024
Vignette demonstrating how to adjust the default parameter values and delay distributions Open

new feature user feedback

Difficulty 3/5 3-5 days Newbie friendliness 48/100

CDCgov/ww-inference-model#91 · Opened Aug 26, 2024
Better documentation around modifying fitting specifications Open

new feature user feedback

Difficulty 3/5 1-2 days Newbie friendliness 35/100

CDCgov/ww-inference-model#90 · Opened Aug 26, 2024
Vignette showing how to evaluate model outputs using probabilistic scoring methods Open

new feature user feedback

Difficulty 3/5 1-2 days Newbie friendliness 45/100

CDCgov/ww-inference-model#89 · Opened Aug 26, 2024

CDCgov/ww-inference-model

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