Blog Archives

Dealing with non-proportional hazards in R

March 29, 2016
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Dealing with non-proportional hazards in R

As things change over time so should our statistical models. The image is CC by Prad Prathivi Since I'm frequently working with large datasets and survival data I often find that the...

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R trends in 2015 (based on cranlogs)

January 20, 2016
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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 years that hit the big...

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Introducing the htmlTable-package

April 22, 2015
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Introducing the htmlTable-package

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 I've just released the 1.3 version....

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How-to go parallel in R – basics + tips

February 16, 2015
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How-to go parallel in R – basics + tips

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, and give tips on how to avoid them....

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An exercise in non-linear modeling

September 7, 2014
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An exercise in non-linear modeling

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 real dataset, and (3) look at how...

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Fast-track publishing using the new R markdown – a tutorial and a quick look behind the scenes

July 29, 2014
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Fast-track publishing using the new R markdown – a tutorial and a quick look behind the scenes

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 format, called the docx_document. The formatter allows an almost...

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Pimping your forest plot

February 23, 2014
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Pimping your forest plot

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 in my mind for a while and I therefore...

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Fast-track publishing using knitr: stitching it together (part V)

January 20, 2014
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Fast-track publishing using knitr: stitching it together (part V)

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 the pieces together. [caption id="attachment_1094"...

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Fast-track publishing using knitr: table mania (part IV)

January 15, 2014
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Fast-track publishing using knitr: table mania (part IV)

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, in this article I will show (1) how...

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Fast-track publishing using knitr: exporting images for sharing and press (part III)

January 7, 2014
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Fast-track publishing using knitr: exporting images for sharing and press (part III)

(This article was first published on G-Forge » R, and kindly contributed to R-bloggers) Images can be a powerful medium if used right. The image is CC by alemdag. Fast-track publishing using knitr is a short series on how I use knitr to speedup publishing in my research. This is the third article in the series devoted to plots....

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