Changelog

gonovax 0.3.1

  • add vignette
  • add fixed parameter transform function

gonovax 0.3.0

  • add vaccine effects vea (acquisition), vei (infectiousness), ved (duration of infection), ves (symptoms)
  • rename ve -> vbe to avoid confusion

gonovax 0.2.9

  • reduce input size from run_grid

gonovax 0.2.8

  • rename strategies

gonovax 0.2.7

  • fix bug QALY cost bug

gonovax 0.2.6

  • move transform function into package

gonovax 0.2.5

  • run_grid uses length of baseline to determine time horizon

gonovax 0.2.4

  • Allow efficacy to be varied in run_onevax

gonovax 0.2.3

  • move compare function used in paper into package

gonovax 0.2.2

  • refactor to run based on strategy
  • allow XVWR model to have two different vaccines (i.e. eff / dur profile)

gonovax 0.2.1

  • add four-stratum waning model: X -> V -> W <-> R

gonovax 0.2.0

  • move globals into package

gonovax 0.1.24

  • allow model restart from a future point (necessary for time-varying params)

gonovax 0.1.23

  • add GRASP 2020 data

gonovax 0.1.22

  • add varying screening rate by group

gonovax 0.1.21

  • data starts in 2010
  • add beta binomial function

gonovax 0.1.20

  • add time-varying beta and eta
  • add option to change compare function

gonovax 0.1.19

  • add GRASP % symptomatic data
  • export data easily
  • add user function for running novax

gonovax 0.1.18

  • add mcmc thinning and sampling tools

gonovax 0.1.17

  • add mcmc fitting method to gumcad data

gonovax 0.1.16

  • bug-fix: extract flows now correctly attributes vaccination / re-vaccination
  • re-code model so treatment of VbE is now the same structure as VoD / VoA

gonovax 0.1.15

  • output vaccination and revaccination separately
  • use parsimonious numbers of compartments in waning model

gonovax 0.1.14

  • output full time series in run_grid()
  • extend baseline to 30 years

gonovax 0.1.13

  • add time-varying vaccination parameter

gonovax 0.1.12

  • export aggregate()
  • export set_strategy()

gonovax 0.1.11

  • output asymptomatic and symptomatic diagnoses

gonovax 0.1.10

  • extend baseline to 20 years
  • take plot method out of package
  • export format_grid

gonovax 0.1.9

  • allow vaccination of activity groups at differing rates

gonovax 0.1.8

  • add onevax_waning model

gonovax 0.1.7

  • remove n_par index as running multiple parameter sets in vectorised mode is inefficient in ode solver.

gonovax 0.1.6

  • add option to output full results in grid_search()
  • add ability to input baseline in grid_search()

gonovax 0.1.5

  • fix bug in novax_baseline()
  • fix model bug that caused people to go missing in VoD
  • update plot method to avoid ggplot2 warnings

gonovax 0.1.4

  • cache baseline (novax) incidence parameters
  • add run_grid_onevax() which run the model with cached parameters across an eff x dur vaccination grid
  • add plot methods for grid objects

gonovax 0.1.3

  • rename model to separate novax, onevax (and in future, dualvax / dualvax_wane)
  • add run_novax() and run_onevax() which run the model with cached parameters from equilibrium if specified
  • add VbE to vaccination output

gonovax 0.1.2

  • add novax_equilib() which returns the cached equilibrium compartments for all parameters in gono_params()

gonovax 0.1.1

  • export gono_params() and allow selection of specific parameter sets
  • export dualvax_initial()
  • add dualvax_restart() for restarting the model from a previous position

gonovax 0.1.0

  • initial version of the model tested with Bexsero only