denvax (version 0.1.2)

build.project: Creates an ROI estimation project.

Description

Creates an ROI estimation project.

Usage

build.project(targetdir, overwrite = FALSE, copy_pub = TRUE)

Arguments

targetdir,

path to enclosing directory. If this directory does not exist, will attempt to create it (recursively)

overwrite,

overwrite existing files corresponding to the project skeleton elements?

copy_pub,

copy the `/pub` folder (which contains the analyses from the publication)

Value

logical, indicating error free creation of the project skeleton; there may still be other warnings

Details

This function sets up the skeleton of an analysis to go from seroprevalence data to the ROI estimation surface. That skeleton uses a series of separate scripts for each analytical step (fitting, simulation, analysis, and application), connected via the command line build tool make. This approach allows clean substitution for various stages (e.g., using a different model to generate life histories). The following files are created:

Makefile

the dependencies for various analysis stages

README.md

brief notes about project parts

fit.R

script for fitting seroprevalence data

synthesize.R

script for generating synthetic populations

digest.R

script for converting life histories into probability coefficients for ROI calculation

simple.R

a quick example start-to-finish analysis

Examples

# NOT RUN {
require(denvax)
tardir <- tempdir() # replace with desired target
build.project(tardir)
list.files(tardir, recursive = TRUE)

# }