Software

gtsummary

Language R

The {gtsummary} package provides an elegant and flexible way to create publication-ready analytic and summary tables using the R programming language. The {gtsummary} package summarizes data sets, regression models, and more, using sensible defaults with highly customizable capabilities. By leveraging {broom}, {gt}, and {labelled} packages, {gtsummary} creates beautifully formatted, ready-to-share summary and result tables in a single line of R code!

Installation Code: install.packages("gtsummary")

More information at http://www.danieldsjoberg.com/gtsummary/


Decision Curve Analysis

Languages R, Stata, SAS

Decision-analytic techniques allow assessment of clinical outcomes but often require collection of additional information may be cumbersome to apply to models that yield a continuous result. Decision curve analysis is a method for evaluating and comparing prediction models that incorporates clinical consequences, requires only the data set on which the models are tested, and can be applied to models that have either continuous or dichotomous results.

Detailed tutorial and installation instructions at https://www.danieldsjoberg.com/dca-tutorial/dca-tutorial-r.html

R package website: http://www.danieldsjoberg.com/dcurves/

Vickers AJ, Elkin EB. “Decision curve analysis: a novel method for evaluating prediction models.” Medical Decision Making. 2006 Nov-Dec;26(6):565-74.

Vickers AJ, Cronin AM, Elkin EB, Gonen M. “Extensions to decision curve analysis, a novel method for evaluating diagnostic tests, prediction models and molecular markers.” BMC Medical Informatics and Decision Making. 2008 Nov 26;8(1):53.


starter

Language R

Get started with new projects by dropping a skeleton of a new project into a new or existing directory, initialise git repositories, and create reproducible environments with the ‘renv’ package. The package allows for dynamically named files, folders, file content, as well as the functionality to drop individual template files into existing projects.

Installation Code: install.packages("starter")

More information at http://www.danieldsjoberg.com/starter/


rstudio.prefs

Language R

As of RStudio v1.3, the preferences in the Global Options dialog (and a number of other preferences that aren’t) are now saved in simple, plain-text JSON files. This package provides an interface for working with these RStudio JSON preference files to easily make modifications without using the point-and-click option menus. This is particularly helpful when working on teams to ensure a unified experience across machines and utilizing settings for best practices.

Installation Code: install.packages("rstudio.prefs")

More information at http://www.danieldsjoberg.com/rstudio.prefs/