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mrc-ide / safir

squire and friends individual rewrite
https://mrc-ide.github.io/safir/
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beta version of safir with multiple doses and Ab titre dynamics #13

Closed slwu89 closed 3 years ago

slwu89 commented 3 years ago

This PR includes a rough working version of a model with Ab dynamics, a quick example is described in this vignette.

Work remaining involves running substantial tests to make sure it is working as expected and cleaning up the code.

codecov[bot] commented 3 years ago

Codecov Report

Merging #13 (94f0e1e) into main (5b564c1) will decrease coverage by 3.86%. The diff coverage is 43.81%.

Impacted file tree graph

@@            Coverage Diff             @@
##             main      #13      +/-   ##
==========================================
- Coverage   64.46%   60.60%   -3.87%     
==========================================
  Files          24       34      +10     
  Lines        1396     1853     +457     
==========================================
+ Hits          900     1123     +223     
- Misses        496      730     +234
Impacted Files Coverage Δ
R/events_exposure_nimue.R 0.00% <0.00%> (ø)
R/events_exposure_vaccine.R 0.00% <0.00%> (ø)
R/initialize_events.R 0.00% <0.00%> (ø)
R/initialize_events_nimue.R 0.00% <0.00%> (ø)
R/initialize_events_vaccine.R 0.00% <0.00%> (ø)
R/parameters_vaccine.R 0.00% <0.00%> (ø)
R/process_infection_nimue.R 100.00% <ø> (ø)
R/process_infection_vaccine.R 0.00% <0.00%> (ø)
R/render.R 0.00% <ø> (ø)
R/simulation_loop_vaccine.R 0.00% <0.00%> (ø)
... and 21 more

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