If you find any typos, errors, or places where the text may be improved, please let us know by providing feedback either in the feedback survey (given during class) or by using GitLab.
The course is designed as a series of participatory live-coding lessons, where the instructor and learner code together, along with hands-on exercises interspersed throughout the course and a final group assignment to do a simple data analysis project. This website contains all of the material for the course, from reading material to exercises to code to images. It is structured as a book, with “chapters” as lessons, given in order of appearance. We make heavy use of the website throughout the course where code-along sessions almost identically follow the material on the website (with slight modifications for time or more detailed explanations).
The course material was created using rmarkdown to write the lessons,
bookdown to create the book format, GitLab to host the Git
repository of the material, and GitLab CI with Netlify to create the website.
The original source material for this course is found on the
r-cubed GitLab repository.
Want to contribute to this course? Check out the README file as well as the CONTRIBUTING file on the GitLab repository for more details. The main way to contribute is by using GitLab and creating a new issue to make comments and give feedback on the material.
This website and its content are targeted to three groups:
- For the learners to use during the course, both to follow along in case they get lost and also to use as a reference after the course ends. The learner is someone who is currently or will soon actively be doing research (e.g. a PhD or postdoc), who is likely in biomedical research, and who has no or little knowledge on coding in R. A more detailed description of who the learner is can be found in Section 2.1.
- For the instructors to use as a guide for when they do the code-along sessions and lectures.
- For those who are interested in teaching, who may not have much experience or may not know where to start, to use this website as a guide to running and instructing their own workshops.
The course material is licensed under the Creative Commons Attribution 4.0 International License, so the material can be used, re-used, and modified, as long as there is attribution to this source. Check out the CONTRIBUTING guidelines and the For Instructors section for more details and tips on using this material.
There have been three previous “formal” versions of the course given so far:
Contributors for version 1 were:
- Luke Johnston: Brainstormed most of the course material and structure; set up the website; organized and coordinated the course; wrote, prepared, and taught most of the code-along sessions, as well as several lectures.
- Daniel Witte: Participated in brainstorming on the course structure and layout; prepared and taught most of the lectures.
- João Santiago: Taught and edited the R Markdown code-along session material.
- Anna Schritz: Taught and edited the Data Management and Wrangling code-along session material.
- Omar Silverman (helper): Proofread and provided feedback on the material for several sessions.
Contributors for version 2 were:
- Luke Johnston: Same as with version 1.
- Daniel Witte: Prepared and taught most of the lectures.
- Helene Bæk Juel: Edited and taught the Data Visualization code-along session material, as well as reviewed multiple other sections.
- Bettina Lengger: Edited and taught the Data Management and Wrangling code-along session material, as well as reviewed multiple other sections.
Contributors for version 3 all participated in discussions on improving the course, extensively updating the course material based on the participant feedback from the previous courses, and heavily reviewing and editing the content:
- Luke Johnston
- Daniel Witte
- Helene Bæk Juel
- Bettina Lengger
- Malene Revsbech Christiansen (helper from version 2)
- Anders Aasted Isaksen (helper from version 2)
- Hannah Chatwin (participant from version 2)
Many pieces from the (in development) course Merely Useful were modified and used in several places throughout the r-cubed course. Other parts were taken and modified from:
- The Aarhus University CRU sessions on project management, data management and wrangling, intermediate dplyr and tidyr usage, data visualization, and R Markdown.
- A Git session, given for the UofTCoders.
- The UofTCoders Intro to R course for Ecology students.
The Danish Diabetes Academy hosted, organized, and sponsored versions 1 and 2 of the course. A huge thanks to them for their involvement, support, and sponsorship! Both Steno Diabetes Center Aarhus and Aarhus University were employers of Luke Johnston and Daniel Witte (the initial founders and creators).