Journal:Using interactive digital notebooks for bioscience and informatics education
| Full article title | Using interactive digital notebooks for bioscience and informatics education |
|---|---|
| Journal | PLOS Computational Biology |
| Author(s) | Davies, Alan; Hooley, Frances; Causey-Freeman, Peter; Eleftheriou, Iliada; Moulton, Georgina |
| Author affiliation(s) | University of Manchester |
| Primary contact | Email: alan dot davies-2 at manchester dot ac dot uk |
| Editors | Ouellette, Francis |
| Year published | 2020 |
| Volume and issue | 16(11) |
| Article # | e1008326 |
| DOI | 10.1371/journal.pcbi.1008326 |
| ISSN | 1553-734X |
| Distribution license | Creative Commons Attribution 4.0 International |
| Website | https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1008326 |
| Download | https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008326 (PDF) |
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This article should be considered a work in progress and incomplete. Consider this article incomplete until this notice is removed. |
Abstract
Interactive digital notebooks provide an opportunity for researchers and educators to carry out data analysis and report results in a single digital format. Further to just being digital, the format allows for rich content to be created in order to interact with the code and data contained in such a notebook to form an educational narrative. This primer introduces some of the fundamental aspects involved in using Jupyter Notebook in an educational setting for teaching in the bioinformatics and health informatics disciplines. We also provide two case studies that detail 1. how we used Jupyter Notebooks to teach non-coders programming skills on a blended master’s degree module for a health informatics program, and 2. a fully online distance learning unit on programming for a postgraduate certificate (PG Cert) in clinical bioinformatics, with a more technical audience.
Keywords: bioinformatics, health informatics, programming, data analysis, Jupyter Notebook, education
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Notes
This presentation attempts to remain faithful to the original, with only a few minor changes to presentation. Grammar and punctuation has been updated reasonably to improve readability. In some cases important information was missing from the references, and that information was added.
