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openVA (version 1.0.9)

Automated Method for Verbal Autopsy

Description

Implements multiple existing open-source algorithms for coding cause of death from verbal autopsies. The methods implemented include 'InterVA4' by Byass et al (2012) , 'InterVA5' by Byass at al (2019) , 'InSilicoVA' by McCormick et al (2016) , 'NBC' by Miasnikof et al (2015) , and a replication of 'Tariff' method by James et al (2011) and Serina, et al. (2015) . It also provides tools for data manipulation tasks commonly used in Verbal Autopsy analysis and implements easy graphical visualization of individual and population level statistics. Note that this package was not developed by authors affiliated with the Institute for Health Metrics and Evaluation and thus unintentional discrepancies may exist in the implementation of the 'Tariff' method.

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Install

install.packages('openVA')

Monthly Downloads

302

Version

1.0.9

License

GPL-2

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Maintainer

Zehang Li

Last Published

February 18th, 2020

Functions in openVA (1.0.9)

openVA_status

Check openVA packages status
getCSMF_accuracy

Calculate CSMF accuracy
getTopCOD

Extract the most likely cause of death
getIndivProb

Extract individual distribution of cause of death
getPHMRC_url

Get the URL to the PHMRC dataset
interVA.train

Extended InterVA method for non-standard input
getCSMF

Obtain CSMF from fitted model
codeVA

Running automated method on VA data
plotVA

Plot top CSMF for a fitted model
openVA_update

Update openVA packages
ConvertData

Converting Input data with different coding scheme to standard format
stackplotVA

plot grouped CSMF from a "insilico" object
ConvertData.phmrc

Convert standard PHMRC data into binary indicator format