Analysing time course microarray data using Bioconductor: a case study using yeast2 Affymetrix arrays

[This article was first published on Why? » R, and kindly contributed to R-bloggers]. (You can report issue about the content on this page here)
Want to share your content on R-bloggers? click here if you have a blog, or here if you don't.

A few years ago I was involved in analysing some time-course microarray data. Our biological collaborators were interested in how we analysed their data, so this lead to a creation of tutorial, which in turn lead to a paper. When we submitted the paper, one the referees “suggested” that we write the paper using Sweave; I had never used Sweave. At the time this was a massive pain and I regularly cursed the name of the anonymous referee.  A few years later, I’ve just updated code (due to a change in Bioconductor) and it was a breeze. A belated thanks to the referee.

In this latest update to the paper I’ve

  • moved the paper to github;
  • changed from Sweave to knitr;
  • used RStudio instead of emacs.

You can find details full details about analysis on the associated github page.

To leave a comment for the author, please follow the link and comment on their blog: Why? » R.

R-bloggers.com offers daily e-mail updates about R news and tutorials about learning R and many other topics. Click here if you're looking to post or find an R/data-science job.
Want to share your content on R-bloggers? click here if you have a blog, or here if you don't.

Never miss an update!
Subscribe to R-bloggers to receive
e-mails with the latest R posts.
(You will not see this message again.)

Click here to close (This popup will not appear again)