RJafroc

Package: RJafroc
Type: Package
Title: Analysis of Data Acquired Using the Receiver Operating
Characteristic Paradigm and Its Extensions
Version: 0.1.1
Date: 2015-08-14
Authors@R: c(person("Xuetong", "Zhai", role = c("aut", "cre"), email = "xuetong.zhai@gmail.com"),
person("Dev", "Chakraborty", role = c("aut", "ths"), email = "dpc10ster@gmail.com"))
Maintainer: Xuetong Zhai <xuetong.zhai@gmail.com>
Depends: tools, xlsx, ggplot2, stringr, utils, stats, shiny
Suggests: knitr
VignetteBuilder: knitr
Description: A common task in medical imaging is assessing whether a new imaging system or device is an improvement over an existing one. Observer performance methodology, such as receiver operating characteristic analysis, is widely used for this purpose. Receiver operating characteristic studies are often required for regulatory approval of new devices. The purpose of this work is to software for the analysis of data acquired using the receiver operating characteristic paradigm and its location specific extensions. It is an enhanced implementation of existing Windows software (http://www.devchakraborty.com). In this paradigm the radiologist rates each image for confidence in presence of disease. The images are typically split equally between actually non-diseased and diseased. A common figure of merit is the area under the receiver operating characteristic curve, which has the physical interpretation as the probability that a diseased image is rated higher than a non-diseased one. In receiver operating characteristic studies a number of radiologists (readers) rate images in two or more treatments, and the object of the analysis is to determine the significance of the inter-treatment difference between reader-averaged figures of merit. In the free-response paradigm the reader marks the locations of suspicious regions and rates each region for confidence in presence of disease, and credit for detection is only given if a true lesion is correctly localized. In the region of interest paradigm each image is divided into a number of regions and the reader rates each region. Each paradigm requires definition of a valid figure of merit that rewards correct decisions and penalizes incorrect ones and specialized significance testing procedures are applied. The package reads data in all currently used data formats including Excel. Significance testing uses two models in widespread use, a jackknife pseudo-value based model and an analysis of variance model with correlated errors. Included are tools for (1) calculating a variety of free-response figures of merit; (2) sample size estimation for planning a future study based on pilot data; (3) viewing empirical operating characteristics in receiver operating characteristic and free-response paradigms; (4) producing formatted report files; and (5) saving a data file in appropriate format for analysis with alternate software. In addition to open-source access to the functions, the package includes a graphical interface for users already familiar with the Windows software, who simply wish to run the program.
License: GPL-3
LazyData: true
URL: http://www.devchakraborty.com
NeedsCompilation: no
Packaged: 2015-08-14 15:39:50 UTC; XuetongZhai
Author: Xuetong Zhai [aut, cre],
Dev Chakraborty [aut, ths]
Repository: CRAN
Date/Publication: 2015-08-14 20:13:33

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'RJafroc' ...
** package 'RJafroc' successfully unpacked and MD5 sums checked
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'RJafroc'
    finding HTML links ... done
    DBMHAnalysis                            html  
    EmpiricalOpCharac                       html  
    FROC2HrROC                              html  
    FigureOfMerit                           html  
    ORHAnalysis                             html  
    OutputReport                            html  
    PowerGivenJK                            html  
    PowerTable                              html  
    RJafroc-package                         html  
    RJafrocGui                              html  
    ReadDataFile                            html  
    SampleSizeGivenJ                        html  
    SaveDataFile                            html  
    frocData                                html  
    rocData                                 html  
    roiData                                 html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RJafroc)
Making 'packages.html' ... done