Greg

Package: Greg
Version: 1.2
Date: 2016-03-28
Title: Regression Helper Functions
Maintainer: Max Gordon <max@gforge.se>
Authors@R: c(person("Max", "Gordon", email = "max@gforge.se", role = c("aut", "cre")),
person("Reinhard", "Seifert", role = "aut", comment = "Author of original plotHR"))
Description: Methods for manipulating regression models and for describing these in a style adapted for medical journals.
Contains functions for generating an HTML table with crude and adjusted estimates, plotting hazard ratio, plotting model
estimates and confidence intervals using forest plots, extending this to comparing multiple models in a single forest plots.
In addition to the descriptives methods, there are addons for the robust covariance matrix provided by the sandwich
package, a function for adding non-linearities to a model, and a wrapper around the Epi package's Lexis functions for
time-spliting a dataset when modeling non-proportional hazards in Cox regressions.
License: GPL (>= 3)
URL: http://gforge.se
Biarch: yes
Imports: Hmisc, stringr, rms, sandwich, stats, nlme, methods,
htmlTable, magrittr, knitr, Epi, utils, graphics, grDevices
Depends: forestplot, Gmisc (>= 1.0.3)
Suggests: boot, testthat, cmprsk, survival, dplyr, ggplot2
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-03-28 19:20:50 UTC; max
Author: Max Gordon [aut, cre],
Reinhard Seifert [aut] (Author of original plotHR)
Repository: CRAN
Date/Publication: 2016-03-28 23:24:58

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'Greg' ...
** package 'Greg' successfully unpacked and MD5 sums checked
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'Greg'
    finding HTML links ... done
    GetCoefAndCI                            html  
    Greg-package                            html  
    SimpleRmsAnova                          html  
    addNonlinearity                         html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/addNonlinearity.Rd:29: missing file link 'BIC'
    bread.ols                               html  
    caDescribeOpts                          html  
    finding level-2 HTML links ... done

    confint.ols                             html  
    confint_robust                          html  
    estfun.ols                              html  
    forestplotCombineRegrObj                html  
    forestplotRegrObj                       html  
    getCrudeAndAdjustedModelData            html  
    getModelData4Forestplot                 html  
    hatvalues.ols                           html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/hatvalues.ols.Rd:22: missing file link 'ols.influence'
    isFitFn                                 html  
    model.matrix.ols                        html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/model.matrix.ols.Rd:18: missing file link 'model.matrix.lm'
    plotHR                                  html  
    prCaAddRefAndStat                       html  
    prCaAddReference                        html  
    prCaAddUserReferences                   html  
    prCaGetImputationCols                   html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/prCaGetImputationCols.Rd:18: missing file link 'fit.mult.impute'
    prCaGetRowname                          html  
    prCaGetVnStats                          html  
    prCaPrepareCrudeAndAdjusted             html  
    prCaReorder                             html  
    prCaReorderReferenceDescribe            html  
    prCaSelectAndOrderVars                  html  
    prCaSetRownames                         html  
    prClearPCAclass                         html  
    prConvertShowMissing                    html  
    prEnvModelCall                          html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/prEnvModelCall.Rd:20: missing file link 'as.formula'
    prExtractOutcomeFromModel               html  
    prFindRownameMatches                    html  
    prGetFpDataFromFit                      html  
    prGetFpDataFromGlmFit                   html  
    prGetFpDataFromSurvivalFit              html  
    prGetModelData                          html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/prGetModelData.Rd:17: missing file link 'get_all_vars'
    prGetModelVariables                     html  
    prGetStatistics                         html  
    prMapVariable2Name                      html  
    prNlChooseDf                            html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/prNlChooseDf.Rd:26: missing file link 'BIC'
    prPhConfIntPlot                         html  
    prPhDensityPlot                         html  
    prPhEstimate                            html  
    prPhNewData                             html  
    prPhRugPlot                             html  
    prPrintCAstring                         html  
    printCrudeAndAdjustedModel              html  
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/printCrudeAndAdjustedModel.Rd:97: missing file link 'fit.mult.impute'
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/printCrudeAndAdjustedModel.Rd:98: missing file link 'fit.mult.impute'
Rd warning: /tmp/RtmpnbxVaq/R.INSTALL220474761952/Greg/man/printCrudeAndAdjustedModel.Rd:112: missing file link 'fit.mult.impute'
    robcov_alt                              html  
    timeSplitter                            html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Greg)
Making 'packages.html' ... done