Dr Rosa Parisi from the Centre for Pharmacoepidemiology and Drug Safety Research at Manchester University will be presenting "An R package for manipulating and analysing Electronic Health Record data" as part of our Biostatistics seminar series at Research Institute for Primary Care & Health Sciences, Keele University.
Monday 14th May 1-2:30pm in Dinwoodie lecture theatre, Primary Care Sciences, David Weatherall building, Keele University ST5 5BG.
Abstract: Electronic health records (EHR)s databases are expanding and becoming more and more accessible to researchers. However, data science methodology to enable the rapid extraction, cleaning and analysis of these large, often complex, datasets is less developed. In addition, commonly used software is inadequate resulting in slowing down the research workflows and in obstacles to increased transparency and reproducibility of research. Preparing a research-ready dataset from EHRs is a complex and time consuming task requiring substantial computational skills, even for simple designs.
We developed an R package, rEHR, which simplifies and accelerates the process of extracting ready-for-analysis datasets from EHR databases. After the files are imported into a SQL database, a set of generic query functions allow users to extract longitudinal data for the calculation of the incidence and prevalence of a disease and to build a cohort for survival analysis. The package also contains functions for cutting data by time-varying covariates, matching controls to cases, unit conversion and clinical code lists. The package has been tested with one of the largest primary care EHRs database, the Clinical Practice Research Datalink, but it can be set to work with different EHRs databases.
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