NEWS

NEWS for the Greg package

Changes for 2.0.2

Improved forestplot integration so that fp_… functions are available (see example for forestplotRegrObj)

BREAKING: Refactored the forestplogRegrObj function to S3-format
Added broom::tidy for rms-models
Updated to new forestplot API together with some general improvements to the forestplot functions
Dropped magrittr in favor of R native-pipe
Converted examples to tidyverse style

Fix for updated survival package with a more consistent naming (3.4-0)
Fix for plotHR axes & bty and improved example with dplyr syntax
Fix for bad offset() handling, was ignored in getCrudeAndAdjusted unless presented as an offset= parameter.

The plotHR has now a more elegant plot S3-function separating the preparing of the plot and the actual output (Note: if called within a loop you now need to call print/plot on the returned object)

Fix for htmlTable 2.0 which means that the css.group option has been dropped in favor of the new theming & addHtmlTableStyle function. See example and vignette for instructions on how-to.

Fixed spelling errors, travis package check, added tests for coverage and other things related to CRAN submission
Added a timeSplitter for making time splits through the Epi::Lexis object simpler
Added a check for null as input parameter to printCrudeAndAdjusted
Added a subset function for get/printCrudeAndAdjusted
Updated the test cases
The reference now has the same number of digits as the rest of the coefficients
Added htmlTable.printCrudeAndAdjusted for more flexible handling

The printCrudeAndAdjusted calls now the correct print version
Added vignette for basic use cases
Fixed non-linearity
Added options-alternative to tailor printCrudeAndAdjusted output
Fixed issue #5
Fixed tspanner handling for printCrudeAndAdjustedModel
Bug when with descriptive stats due to missing misspelled (useNa instead of useNA)
Added a rbind for printCrudeAndAdjusted
Added handling of missing variable for the outcome estimator
Fixed simpleRmsAnova
Fixed getModelData with subsetting arguments not being constants
All show_missing are now useNA to comply with main package standards
A few bug fixes

Changed the desc_ arguments into a list using the caDescribeOpts
Refactored major parts of the printCrudeAndAdjusted
Changed to use model.frame() under the hood - hopefully stabilizing the functions as it uses a more standard R-approach
The update() now actively runs under the model environment
The plotHR is updated and can now plot contrasts if provided a rms-package regression allowing for efficient comparison of multiple models. Internal functions have also been externalized.
All current unit tests now pass and several new ones have been added
Implemented DRY roxygen2 code
The getCrudeAndAdjusted now retains cluster and stratas - there are options for leaving these out to retain old behavior
The getCrudeAndAdjusted now allows for selecting variables. The printCrudeAndAdjusted now passes on the order option when variable selection is of interest.
Cleaned variables for the forestplot2 functions
Added the addNonlinearity that adds non-linearity for a variable if it finds support for it in the data.

Major remake of the print-/getCrudeAndAdjusted so that they depend on prMapVariable2Name and everything is now centered around the variables
The printCrudeAndAdjustedModel no longer capitalizes the first letter in order to allow all lower case var names
Added imputation compatibility with the Hmisc::fit.mult.impute function
Added multiple test cases for stability

The getCrudeAndAdjusted now handles the intercept term better for naming the rows (Thanks to Victor)
The getCrudeAndAdjusted/printCrudeAndAdjusted now use ‘model’ instead ‘fit’ for the model regression object name
The printCrudeAndAdjusted now calls print on the htmlTable_str object so that it appears as expected
Added unit tests