The final nail in the coffin for the degenerative meniscus?

Some studies give time for pause. The image is CC by Matt Katzenberger.
Some studies give time for pause. The image is CC by Matt Katzenberger.

I have my doubts when it comes to operating a degenerative meniscus (see my previous post) and in an amazing Finnish multicenter RCT it seems that my doubts have been confirmed. Sihvonen et al. managed to randomize 146 patients to arthroscopic meniscal or sham surgery where none of the outcomes differed between the groups. Continue reading

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Posted in Orthopaedic surgery | Leave a comment

A bloody mess?

Do blood transfusions cause infections? The image is CC by Peter Almay.
Do blood transfusions cause infections? The image is CC by Peter Almay.

Blood transfusions lower the immune response – a known fact although not all doctors are aware of it. It is therefore nice to see that two new articles in JBJS that focus on the subject. Both focus on arthroplasties where the impact of an infection due to a lowered immune response can be catastrophic to the individual. Continue reading

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Posted in General | Leave a comment

Pimping your forest plot

A forest plot using different markers for the two groups
A forest plot using different markers for the two groups

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 put it into practice. Continue reading

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The rotator cuff dilemma – revisited

A black-shouldered kite with prey. The image is CC by Tariq Sani.
A black-shouldered kite with prey. The image is CC by Tariq Sani.

Is Kukkonen et. al.’s RCT the end of our love for the rotator cuff tear? The industry surrounding rotator cuff tears costs in the US alone about $3 billion every year, earning a top position among common orthopaedic procedures. I have previously written about my doubts concerning this procedure and it is with some satisfaction that I dive in to this recent study by Kukkonen et. al.

It is better to have loved and lost, than never to have loved at all.

Alfred Lord Tennyson

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

Putting all the pieces together can be challenging both for surgeons and researchers. The image is CC by Zac Peckler
Putting all the pieces together can be challenging both for surgeons and researchers. The image is CC by Zac Peckler

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. Continue reading

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Posted in R, Tutorial | Tagged | 14 Comments

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

Constructing tables is an art - maximizing readability and information can be challenging. The image is of the Turning Torso in Malmö and is CC by Alan Lam.
Constructing tables is an art – maximizing readability and information can be challenging. The image is of the Turning Torso in Malmö and is CC by Alan Lam.

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 to quickly generate a descriptive table, (2) how to convert your regression model into a table, and (3) worth knowing about table design and anatomy. Continue reading

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Posted in R, Tutorial | Tagged | 5 Comments

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

Images can be a powerful medium if used right. The photo is CC by alemdag.
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. Hopefully you will through this post have the need-to-know stuff so that you can (1) add auto-numbering to your figures, (2) decide on image formats, (3) choose image resolution, and (4) get anti-aliasing working. Continue reading

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Posted in R, Research | Tagged | 7 Comments

Fast-track publishing using knitr: the setup using .RProfile with custom CSS + some HTML goodies (part II)

Flexing RStudio/knitr where you want can be a challenge. The image is CC by Ben Barnes.
Flexing RStudio/knitr where you want can be a challenge. The image is CC by Ben Barnes.

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 about HTML that might be good to know, and lastly some special characters that can be useful. In the previous post, part I, I explained some of the more general concepts behind fast-track publishing and why I try to get my manuscript into MS Word instead of using LaTeX or other alternatives. Continue reading

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Fast-track publishing using knitr: intro (part I)

A beautiful old document. Probably state of the art in those days. The image is CC by storebukkebruse.
A beautiful old document. Probably state of the art in those days. The image is CC by storebukkebruse.

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 try to (1) define the main groups of obstacles I have experienced motivating knitr, (2) options I’ve used for extracting knitted results into MS Word. The emphasis will be on general principles and what have worked for me. Continue reading

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Posted in General, R, Research | 5 Comments

The forestplot of dreams

A forestplot that compares Swedish and Danish EQ-5D outcome predictors
A forestplot that compares Swedish and Danish EQ-5D outcome predictors generated with the forestplot2()-function in the Gmisc-package

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. Thomas Lumleys forestplot and ended up in a complete remake of the function. In this post I’ll show you how to tame the plot using data from my latest article. Continue reading

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Posted in R, Tutorial | 5 Comments