Issues

• Agent-facing docs never say that PR review is on-request only, so an agent waits for a review that never comes

  ai-authoredmodel:claude-opus-5
  UCD-SERG/serodynamics#321 · Filter by author d-morrison opened on Sep 9, 2026

• Error when running run_serodynamics() on Windows

  UCD-SERG/serodynamics#320 · Filter by author psamonwong opened on Sep 3, 2026
  

• ci: windows-latest R-CMD-check intermittently fails at "install rjags" with JAGS not found

  bug
  UCD-SERG/serodynamics#319 · Filter by author d-morrison opened on Sep 2, 2026

• Consider autoUpdate: true on the Morrison-Lab plugin marketplace entry

  UCD-SERG/serodynamics#318 · Filter by author d-morrison opened on Sep 1, 2026

• ggplot2 version conflict breaks + on ggmcmc plot output (reported by IJE reviewer)

  UCD-SERG/serodynamics#315 · Filter by author d-morrison opened on Sep 1, 2026

• ci: version-check forces every PR to claim the same dev version, so concurrent PRs collide on DESCRIPTION

  UCD-SERG/serodynamics#312 · Filter by author d-morrison opened on Sep 1, 2026

• y1 parameter documentation

  UCD-SERG/serodynamics#306 · Filter by author ekamau opened on Aug 27, 2026
  

• Replace synthetic newperson with post-hoc posterior prediction for new individuals

  UCD-SERG/serodynamics#302 · Filter by author kaiemjoy opened on Aug 27, 2026
  2

  

• clarifying description terminology

  UCD-SERG/serodynamics#300 · Filter by author kaiemjoy opened on Aug 27, 2026
  

• claude.yml does not forward WORKFLOW_TOKEN (latent while the agent is disabled)

  UCD-SERG/serodynamics#297 · Filter by author d-morrison opened on Aug 24, 2026

• Change name of package to serokinetics

  UCD-SERG/serodynamics#296 · Filter by author sschildhauer opened on Aug 20, 2026
  

• Add faceting and color grouping to plot_residuals()

  UCD-SERG/serodynamics#295 · Filter by author sschildhauer opened on Aug 19, 2026
  1

  

• Inconsistent notation for the decay shape parameter (shape vs r) across model, functions, plots, and docs

  documentationenhancement
  UCD-SERG/serodynamics#293 · Filter by author Kwan-Jenny opened on Aug 17, 2026

• Auto-sync the vendored .claude/skills/reprexes copy with the ai-config source

  UCD-SERG/serodynamics#272 · Filter by author d-morrison opened on Jul 18, 2026
  1

• add a params() function

  UCD-SERG/serodynamics#271 · Filter by author d-morrison opened on Jul 14, 2026

• Develop Sample Size Calculation Vignette

  UCD-SERG/serodynamics#269 · Filter by author sschildhauer opened on Jul 8, 2026
  

• write long-to-wide and wide-to-long conversion functions for sr_params objects

  UCD-SERG/serodynamics#268 · Filter by author d-morrison opened on Jul 6, 2026

• use badger

  UCD-SERG/serodynamics#251 · Filter by author d-morrison opened on Jun 18, 2026

• Fix plot_trace parenthesis

  UCD-SERG/serodynamics#249 · Filter by author sschildhauer opened on Jun 17, 2026

• modify lintr config: prescribe single-indent over hanging indent

  UCD-SERG/serodynamics#247 · Filter by author d-morrison opened on Jun 14, 2026
  2

• Make diagnostic plots work on population parameters as an option

  UCD-SERG/serodynamics#243 · Filter by author sschildhauer opened on Jun 4, 2026

• [manuscript] Run and cache full run_mod() + serocalculator pipeline outputs for camera-ready rendering

  manuscript
  UCD-SERG/serodynamics#238 · Filter by author Kwan-Jenny opened on May 25, 2026

• [manuscript] Add funding acknowledgements

  manuscript
  UCD-SERG/serodynamics#237 · Filter by author Kwan-Jenny opened on May 25, 2026

• [manuscript] Add Supplement S4: description of the Nepal SEES typhoid use-case dataset

  documentationmanuscript
  UCD-SERG/serodynamics#236 · Filter by author Kwan-Jenny opened on May 25, 2026

• [manuscript] Add Supplement S3: prior distributions used by prep_priors()

  documentationmanuscript
  UCD-SERG/serodynamics#235 · Filter by author Kwan-Jenny opened on May 25, 2026