Package: denvax 0.1.3
denvax: Simple Dengue Test and Vaccinate Cost Thresholds
Provides the mathematical model described by "Serostatus Testing & Dengue Vaccine Cost-Benefit Thresholds" in <doi:10.1098/rsif.2019.0234>. Using the functions in the package, that analysis can be repeated using sample life histories, either synthesized from local seroprevalence data using other functions in this package (as in the manuscript) or from some other source. The package provides a vignette which walks through the analysis in the publication, a function to generate a project skeleton for such an analysis, and a shiny app to run scenarios.
Authors:
denvax_0.1.3.tar.gz
denvax_0.1.3.zip(r-4.7)denvax_0.1.3.zip(r-4.6)denvax_0.1.3.zip(r-4.5)
denvax_0.1.3.tgz(r-4.6-any)denvax_0.1.3.tgz(r-4.5-any)
denvax_0.1.3.tar.gz(r-4.7-any)denvax_0.1.3.tar.gz(r-4.6-any)
denvax_0.1.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
denvax/json (API)
| # Install 'denvax' in R: |
| install.packages('denvax', repos = c('https://pearsonca.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://gitlab.com/cabp_lshtm/denvax
Datasets:
- lazou2016 - The serosurvey data in L'Azou 2016
- morrison2010 - The serosurvey data in Morrison 2010
Last updated from:02a18792ab. Checks:7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | NOTE | 151 | ||
| source / vignettes | OK | 206 | ||
| linux-release-x86_64 | NOTE | 153 | ||
| macos-release-arm64 | NOTE | 155 | ||
| macos-oldrel-arm64 | NOTE | 132 | ||
| windows-devel | NOTE | 87 | ||
| windows-release | NOTE | 119 | ||
| windows-oldrel | NOTE | 102 | ||
| wasm-release | OK | 117 |
Exports:build.projectdenvaxAppnPxArescale_x_Tcostrescale_y_VcostROIROIcoeffsscale_color_ROIsignscale_fill_ROIscale_linetype_ROIlvlscale_x_log10tauscale_x_startAgescale_y_endAgescale_y_nuscale_y_numTestsserofitsynthetic.pop
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Creates an ROI estimation project. | build.project |
| denvax: Simple Dengue Test and Vaccinate Cost Thresholds | denvax |
| Provide customized ggplot2 continuous scales | denvax_scales rescale_x_Tcost rescale_y_Vcost scale_color_ROIsign scale_fill_ROI scale_linetype_ROIlvl scale_x_log10tau scale_x_startAge scale_y_endAge scale_y_nu scale_y_numTests |
| Launches shiny apps for denvax analyses. | denvaxApp |
| The serosurvey data in L'Azou 2016 | lazou2016 |
| The serosurvey data in Morrison 2010 | morrison2010 |
| Compute the nPx(A), C(A) proportions from a population of life histories | nPxA |
| Compute the ROI surfaces given test and vaccine cost fractions. | ROI |
| Compute the Return on Investment (ROI) surface coefficients from population probabilities | ROIcoeffs |
| Model fitting for serological data | serofit |
| Compute synthetic population trajectories from model parameters | synthetic.pop |
