BCB330

BCB330Y (Special Project in Bioinformatics and Computational Biology)
BCB430Y (Advanced Special Project in Bioinformatics and Computational Biology)

 

Summary ...

• http://biochemistry.utoronto.ca/courses/bcb330y-bcb-project/
• http://biochemistry.utoronto.ca/courses/bcb430y-bcb-project/

 

 

 

Introductory reading

 

Contents

• how to maintain a lab journal on Google Docs and MediaWiki
• a bioinformatics centric introduction to R
• uses of GitHub
• collaborative workflow via RStudio, GitHub and back
• best practices for reproducible research (documentation and backup)
• writing and maintaining requirements documents
• architecture-centric design
• defining software module interfaces
• test-driven development (incl. unit- and integration testing)
• code style guides
• function templates
• essentials of code-review
• contributing to R packages
• (possibly: principles of literate programming and R-Notebooks)
• documentation (with Roxygen and markdown)

• design patterns for bioinformatics, and
• simulation and permutation tests for statistics with biological datasets

   

Further reading and resources