Bioinformatics: R object-oriented programming and package development

Prerequisites

The course will present intermediate to advanced R programming using the object-oriented programming paradigm. It will cover how to document code and data to produce a fully functional R package. Further information is available here.

The Course Web Site providing links to the course materials is here.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book register Interest by linking here.

• Our courses are open to all who might benefit
• Booking priority is given to people from Cambridge University and Collaborating Institutes
• Individual Course fees are required only from External participants not from Collaborating Institutes

• Only attending Bioinformatics: Introduction to R would not provide sufficient background for this course
• A substantial period of active programming experience in R will be assumed
• Familiarity with object-oriented programming and Latex would be an advantage, but not essential

Number of sessions: 1

• Introduction: what is object-oriented programming; description of the working example; R programming best practices: tips and tricks, environments, coding standards
• R object-oriented programming: the S3 and S4 OO systems
• Documentation: documenting functions, methods and data, providing executable examples; documentation using Roxygen; executing R code inside Latex document (Vignettes)
• Writing R packages: minimum package structure; combining the written classes/generics/methods and documentation to create a package; building, checking and installing packages
• Other advanced R programming topics: testing code, unit testing; profiling and debugging; calling C code inside R

• To help users advance their R programming skills to be able to begin writing object-oriented code and/or developing R packages

Presentation and demonstrations

1

A number of times per year