Analysis of Coarsely Observed Data

Functions to analyze coarse data. Specifically, it contains functions to (1) fit parametric accelerated failure time models to interval-censored survival time data, and (2) estimate the case-fatality ratio in scenarios with under-reporting. This package's development was motivated by applications to infectious disease: in particular, problems with estimating the incubation period and the case fatality ratio of a given disease. Sample data files are included in the package. See Reich et al. (2009) , Reich et al. (2012) , and Lessler et al. (2009) .


This is the repository for the coarseDataTools R package. We use this as a development space. The most recent, stable version of the package can be downloaded either from CRAN (http://cran.r-project.org/web/packages/coarseDataTools/) or from the most recent release version on github (https://github.com/nickreich/coarseDataTools/releases).

This package contains functions to analyze coarsely observed data. Specifically, it contains functions to (1) fit parametric accelerated failure time models to interval-censored survival time data, and (2) estimate the case-fatality ratio in scenarios with underreporting. This package's development was motivated by applications to infectious disease: in particular, problems with estimating the incubation period and the case fatality ratio of a given disease. Sample data files are included in the package.

As of March 2016, coarseDataTools imports functions from the MCMCpack package, which in turn imports functions from the graph and Rgraphviz packages. Both of these packages have been removed from CRAN, but can be installed from Bioconductor using the following code:

source("https://bioconductor.org/biocLite.R")
biocLite("graph")
biocLite("Rgraphviz")

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install.packages("coarseDataTools")

0.6-5 by Nicholas G. Reich, 7 months ago


https://cran.r-project.org/package=coarseDataTools


Browse source code at https://github.com/cran/coarseDataTools


Authors: Nicholas G. Reich [aut, cre] , Justin Lessler [aut] , Andrew Azman [aut] , Zhian N. Kamvar [ctb]


Documentation:   PDF Manual  


Task views: Survival Analysis


GPL (>= 2) license


Imports MCMCpack, graphics, stats, methods


Imported by EpiEstim.


See at CRAN