Computational protocol: Glocal Clinical Registries: Pacemaker Registry Design and Implementation for Global and Local Integration – Methodology and Case Study

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Protocol publication

[…] We established a system to generate automated data quality control and prediction reports based on the R statistical language. This system involves a set of packages enabling literate programming and reproducible research standards to automatically transform the statistical results into a real-time reports deployed in HTML (HyperText Markup Language) and PDF (Portable Document Format), both available from our central Web site . Reports are created using the knitr package and the Markdown language in combination with R . Specifically, we use R Markdown files with subsequent transformations to HTML and PDF performed through pandoc . Documents are then presented on our Web server through the rApache package , ultimately ensuring that data quality reports are maintained up to date. Scripts for all of our procedures are available at our Github repository .Association reports are also provided as a mechanism for exploratory graphical analysis. Among them, we included the MINE (Maximal Information-based Nonparametric Exploration) algorithm , a sophisticated, robust algorithm used for exploratory analyses. Extensive use of exploratory graphical methods is facilitated by the use of the R package ggplot2 , along with other methods for data manipulation. Additional integrated services included the use of BigQuery for manipulating large data sets as well as Google prediction services . […]

Pipeline specifications

Software tools Knitr, R-Markdown, Ggplot2
Application Miscellaneous