Reproducible Pharmacometrics 2.0: Generation of submission-ready Word reports based on open source tools
PAGE 2019 Meeting, June 10 Monday, 13:00-17:00
Mindset Konferens, Room: Ettan, Mäster Samuelsgatan 60, Stockholm [View Map]
Pharmacometric reports typically contain a large number of figures, tables, text files, in-line text, and numerical values that have been generated during the conduct of analyses. While these results are often generated in a script-based manner, reporting of these results is complicated by corporate requirements to use Microsoft Word and a specific in house-style guide, requiring scientists to copy, paste, and format results manually in a time-consuming and error-prone process.
Wilkins and Jonsson [Reproducible pharmacometrics, PAGE Meeting, Glasgow, Scotland, 2013] presented an approach to Reproducible Pharmacometrics that allowed a full end-to-end scripting of the analysis and the creation of publication-ready reports. Their solution was based on LaTeX, knitr, and R. While this approach is very powerful, LaTeX can be perceived as a cumbersome language. More importantly, the output is a PDF rather than a Word document, which often does not comply with corporate publication policy. In recent years, R Markdown has been developed, allowing to use the more lightweight language Markdown, and RStudio supporting the conversion to Word. However, no R Markdown support is available for critical Word features, such as cross-references, figure and table captions, and choice of more complex Word styles, impeding the generation of submission-ready Word documents.
The workshop is designed as a hands-on tutorial, allowing participants to work through all examples under guidance of the presenters. All material (slides, example reports, R code, required R libraries, and additional software) will be shared with the participants at least 2 weeks before the workshop. In case a participant would like to have hands-on experience during the workshop, a laptop (preferably Windows) with an R installation should be brought to the workshop.
Mäster Samuelsgatan 60
The regular workshop fee is 250 EUR for industry, 150 EUR for academia/government/non-profit, and 100 EUR for students. This includes workshop material and coffee break. Payment can be done conveniently and securely via PayPal, here below:
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|June 10th Monday
|Lunch will be provided for participants that take part in both the QSP modeling and the reporting workshop
|Welcome and Introduction