Other packages > Find by keyword >

vacalibration  

Calibration of Computer-Coded Verbal Autopsy Algorithm
View on CRAN: Click here


Download and install vacalibration package within the R console
Install from CRAN:
install.packages("vacalibration")

Install from Github:
library("remotes")
install_github("cran/vacalibration")

Install by package version:
library("remotes")
install_version("vacalibration", "2.0")



Attach the package and use:
library("vacalibration")
Maintained by
Sandipan Pramanik
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2025-07-24
Latest Update: 2025-07-24
Description:
Calibrates cause-specific mortality fractions (CSMF) estimates generated by computer-coded verbal autopsy (CCVA) algorithms from WHO-standardized verbal autopsy (VA) survey data. It leverages data from the multi-country Child Health and Mortality Prevention Surveillance (CHAMPS) project <https://champshealth.org/>, which determines gold standard causes of death via Minimally Invasive Tissue Sampling (MITS). By modeling the CHAMPS data using the misclassification matrix modeling framework proposed in Pramanik et al. (2025, <doi:10.1214/24-AOAS2006>), the package includes an inventory of 48 uncertainty-quantified misclassification matrices for three CCVA algorithms (EAVA, InSilicoVA, InterVA), two age groups (neonates aged 0-27 days and children aged 1-59 months), and eight "countries" (seven countries in CHAMPS – Bangladesh, Ethiopia, Kenya, Mali, Mozambique, Sierra Leone, South Africa – and an estimate for countries not in CHAMPS). Given a VA-only data for an age group, CCVA algorithm, and country, the package uses the corresponding uncertainty-quantified misclassification matrix estimates as an informative prior, and utilizes the modular VA-calibration to produce calibrated CSMF estimates. It also supports ensemble calibration when VA-only data are provided for multiple algorithms. More generally, the package can be applied to calibrate predictions from a discrete classifier (or ensemble of classifiers) utilizing user-provided fixed or uncertainty-quantified misclassification matrices. This work is supported by the Bill and Melinda Gates Foundation Grant INV-034842.
How to cite:
Sandipan Pramanik (2025). vacalibration: Calibration of Computer-Coded Verbal Autopsy Algorithm. R package version 2.0, https://cran.r-project.org/web/packages/vacalibration. Accessed 10 Mar. 2026.
Previous versions and publish date:
No previous versions
Other packages that cited vacalibration R package
View vacalibration citation profile
Other R packages that vacalibration depends, imports, suggests or enhances
Complete documentation for vacalibration
Functions, R codes and Examples using the vacalibration R package
Full vacalibration package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

nextGenShinyApps  
Craft Exceptional 'R Shiny' Applications and Dashboards with Novel Responsive Tools
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency  
plyr  
Tools for Splitting, Applying and Combining Data
A set of tools that solves a common set of problems: you need to break a big problem down into mana ...
Download / Learn more Package Citations See dependency  
gena  
Genetic Algorithm and Particle Swarm Optimization
Implements genetic algorithm and particle swarm algorithm for real-valued functions. Various modific ...
Download / Learn more Package Citations See dependency  
envirem  
Generation of ENVIREM Variables
Generation of bioclimatic rasters that are complementary to the typical 19 bioclim variables. ...
Download / Learn more Package Citations See dependency  

26,293

R Packages

225,784

Dependencies

70,376

Author Associations

26,294

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA