Automated Method for Verbal Autopsy
Running automated method on VA data
Convert standard PHMRC data into binary indicator format
Converting Input data with different coding scheme to standard format
Calculate CSMF from EAVA::codEAVA output
Calculate Overall chance-corrected concordance (CCC)
Calculate CSMF accuracy
Obtain CSMF from fitted model
Extract individual distribution of cause of death
Get the URL to the PHMRC dataset
Extract the most likely cause(s) of death
Extended InterVA method for non-standard input
Check openVA packages status
Update openVA packages
Create CSMF plot for EAVA::codEAVA output
Plot CSMF from a vacalibration object
Plot top CSMF for a fitted model
Convert the assigned causes to the format expected by vacalibration::v...
Print method for summarizing results from EAVA algorithm.
Print method for "eava" class.
Print method for summarizing vacalibration results
Print method for vacalibration model fits
Objects exported from other packages
plot grouped CSMF from a "insilico" object
Summary of results obtained by fitting the EAVA algorithm.
Summary of results obtained by vacalibration
Implements multiple existing open-source algorithms for coding cause of death from verbal autopsies. The methods implemented include 'InterVA4' by Byass et al (2012) <doi:10.3402/gha.v5i0.19281>, 'InterVA5' by Byass at al (2019) <doi:10.1186/s12916-019-1333-6>, 'InSilicoVA' by McCormick et al (2016) <doi:10.1080/01621459.2016.1152191>, 'NBC' by Miasnikof et al (2015) <doi:10.1186/s12916-015-0521-2>, and a replication of 'Tariff' method by James et al (2011) <doi:10.1186/1478-7954-9-31> and Serina, et al. (2015) <doi:10.1186/s12916-015-0527-9>. 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. The 'NBC' method is implemented by the 'nbc4va' package that can be installed from <https://github.com/rrwen/nbc4va>. 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.
Useful links