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The htmlTable 2.0 package was just released on CRAN! It is my most downloaded package with 160 000+ downloads/month and this update is something that I have been wanting to do for a long time. For those of you that never encountered htmlTable it is a package that takes a matrix/data.... [Read more...]

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[caption id="attachment_1837" align="aligncenter" width="640"] As things change over time so should our statistical models. The image is CC by Prad Prathivi[/caption] Since I'm frequently working with large datasets and survival data I often find that the proportional hazards assumption for the Cox regressions doesn't hold. In my ... [Read more...]

It is always fun to look back and reflect on the past year. Inspired by Christoph Safferling's post on top packages from published in 2015, I decided to have my own go at the top R trends of 2015. Contrary to Safferling's post I'll try to also (1) look at packages from previous ... [Read more...]

My htmlTable-function has perhaps been one of my most successful projects. I developed it in order to get tables matching those available in top medical journals. As the function has grown I've decided to separate it from my Gmisc-package into a separate package, and at the time of writing this ... [Read more...]

Today is a good day to start parallelizing your code. I've been using the parallel package since its integration with R (v. 2.14.0) and its much easier than it at first seems. In this post I'll go through the basics for implementing parallel computations in R, cover a few common pitfalls, ... [Read more...]

In my previous post I wrote about the importance of age and why it is a good idea to try avoiding modeling it as a linear variable. In this post I will go through multiple options for (1) modeling non-linear effects in a linear regression setting, (2) benchmark the methods on a ... [Read more...]

The new R Markdown (rmarkdown-package) introduced in Rstudio 0.98.978 provides some neat features by combining the awesome knitr-package and the pandoc-system. The system allows for some neat simplifications of the fast-track-publishing (ftp) idea using so called formats. I've created a new package, the Grmd-package, with an extension to the html_document ... [Read more...]

In order to celebrate my Gmisc-package being on CRAN I decided to pimp up the forestplot2 function. I had a post on this subject and one of the suggestions I got from the comments was the ability to change the default box marker to something else. This idea had been ... [Read more...]

Fast-track publishing using knitr is a short series on how I use knitr to speedup publishing in my research. There has been plenty of feedback and interest for the series, and in this post I would like to provide (1) a brief summary and (2) an example showing how to put all ... [Read more...]

Fast-track publishing using knitr is a short series on how I use knitr to speedup publishing in my research. While illustrations (previous post) are optional, tables are not, and this fourth article is therefore devoted to tables. Tables through knitr is probably one of the most powerful fast-track publishing tools, ... [Read more...]

[This article was first published on G-Forge » R, and kindly contributed to R-bloggers]. (You can report issue about the content on this page here) Want to share your [Read more...]

Fast-track publishing using knitr is a short is a short series on how I use knitr to get my articles faster published. This is part II where I will show how you can tweak RStudio into producing seamless MS Word-integration by using the .RProfile together with CSS, a few basics ... [Read more...]

Fast-track publishing using knitr is a short series on how I use knitr to get my articles faster published. By fast-track publishing I mean eliminating as many of the obstacles as possible during the manuscript phase, and not the fast-track some journals offer. In this first introductory article I will ... [Read more...]

Displaying large regression models without overwhelming the reader can be challenging. I believe that forestplots are amazingly well suited for this. The plot gives a quick understanding of the estimates position in comparison to other estimates, while also showcasing the uncertainty. This project started with some minor tweaks to prof. ... [Read more...]

The key to programming is being lazy; it has actually been called a virtue by some. When I discovered the update() function it blew me away. Within short I had created a monster based upon this tiny function, allowing quick and easy output of regression tables that contain crude and ... [Read more...]

[caption id="attachment_749" align="aligncenter" width="504"] A transition between states - the above is a simulation of before and after surgery where I've highlighted the large proportion that doesn't improve in the moderate group.[/caption] As an orthopaedic surgeon I'm often interested in how a patient is doing after surgery ... [Read more...]