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CDCgov
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ww-inference-model
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
https://cdcgov.github.io/ww-inference-model/
Apache License 2.0
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Exclude data beyond forecast date automatically?
#101
kaitejohnson
opened
2 months ago
0
Sites shouldn't need to be sequentially ordered
#100
kaitejohnson
closed
2 months ago
1
Fix error messaging on insufficient hospital admissions duration
#99
kaitejohnson
closed
2 months ago
0
Fix `check_req_ww_cols_present`
#98
kaitejohnson
closed
2 months ago
4
Handle NAs in wastewater data
#97
kaitejohnson
closed
2 months ago
0
Adding Inferring correlation matrix without correlation function based off distance
#96
cbernalz
closed
2 months ago
0
Non-Dev Installation Instructions
#95
damonbayer
closed
2 months ago
0
Document package use cases
#94
kaitejohnson
opened
2 months ago
0
Allow the user to pass in weekly count data
#93
kaitejohnson
opened
2 months ago
3
Vignette showing how to troubleshoot convergence diagnostics
#92
kaitejohnson
opened
2 months ago
1
Vignette demonstrating how to adjust the default parameter values and delay distributions
#91
kaitejohnson
opened
2 months ago
0
Better documentation around modifying fitting specifications
#90
kaitejohnson
opened
2 months ago
0
Vignette showing how to evaluate model outputs using probabilistic scoring methods
#89
kaitejohnson
opened
2 months ago
0
Make clear in the vignette what output variables are in the `draws_df`, with option to allow user to specify desired outputs
#88
kaitejohnson
closed
2 months ago
1
Edit author list
#87
kaitejohnson
closed
2 months ago
0
Change output names
#86
kaitejohnson
closed
2 months ago
2
Switch to placing prior on and inferring `i/n` at the first observed timepoint
#85
dylanhmorris
closed
2 months ago
6
place a prior on and infer the last point in the exponential growth period, not the first
#84
dylanhmorris
closed
2 months ago
0
Merge `main` into `spatial-main`
#83
dylanhmorris
closed
3 months ago
0
Update `spatial-main` from `main`
#82
dylanhmorris
closed
3 months ago
1
Fix params docs in wwinference.R
#81
dylanhmorris
closed
2 months ago
0
Update pkgdown.yaml
#80
dylanhmorris
closed
3 months ago
0
Speed up website build in CI?
#79
dylanhmorris
opened
3 months ago
1
Update r-cmd-check.yaml
#78
dylanhmorris
closed
3 months ago
2
Modify `generate_simulated_data()` to add noise to R(t) on log scale
#77
kaitejohnson
opened
3 months ago
0
2024-08-22 update : preping testfile.
#76
cbernalz
closed
2 months ago
1
Adding an improved switch to go from spatial to non-spatial model in wwinference stan model
#75
cbernalz
closed
2 months ago
0
42 parameterize weekday effect with a dirichlet
#74
dylanhmorris
closed
3 months ago
4
Minor formatting changes
#73
akeyel
closed
3 months ago
0
Hot fix edits while reviewing
#72
kaitejohnson
closed
3 months ago
0
Rendered Stan docs
#71
seabbs
opened
3 months ago
0
Separate default prior values and user-specified parameter values
#70
kaitejohnson
opened
3 months ago
0
Is automated detection/flagging of suspected outliers in scope for this package?
#69
dylanhmorris
opened
3 months ago
0
Update covid infection to admissions delay
#68
kaitejohnson
opened
3 months ago
0
Infection to count delay length should be the length of the unobserved exponential growth period
#67
kaitejohnson
opened
3 months ago
0
Review initialization approach, document it more, and possibly make it more generic
#66
dylanhmorris
opened
3 months ago
0
Infection feedback strength for simulated data should be configurable
#65
dylanhmorris
closed
3 months ago
2
Tweak / plot size in vignette plots
#64
dylanhmorris
opened
3 months ago
3
Add test coverage with Github token
#63
kaitejohnson
opened
3 months ago
0
geom_line => geom_step
#62
dylanhmorris
closed
3 months ago
0
Specify all inputs to `generate_simulated_data()` or draw from prior as default
#61
kaitejohnson
opened
3 months ago
0
Posterior predictive distributions should be piecewise constant?
#60
athowes
closed
3 months ago
1
49 output class creation
#59
kaitejohnson
closed
3 months ago
10
Adding class and methods for wwinference model fit
#58
gvegayon
closed
2 months ago
4
Allow user to generate simulated data without auxiliary site/subpop
#57
kaitejohnson
opened
3 months ago
0
2024-08-08 update : adding spatial to wwinference model.
#56
cbernalz
closed
3 months ago
10
Combining error messages with `checkmate::check_x()` output and `cli::cli_abort()`
#55
kaitejohnson
closed
3 months ago
1
Testing for key functions
#54
kaitejohnson
closed
3 months ago
6
2024-08-07 update : adding matrix normalization func. and using AR1 in spatial func.
#53
cbernalz
closed
3 months ago
1
Adding fixed geometric mean marginal variance correlation matrix correction function
#52
cbernalz
closed
3 months ago
0
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