Summer Institute in Statistical Genetics
Module 14: Elements of R for Genetics & Bioinformatics
Instructors: Thomas Lumley and Ken Rice
This page will feature slides from our sessions, exercises for you to complete, and their solutions (all to follow). Prior to the module, please install on an up-to-date version of R on the laptop you will use during the summer institute. R is free, and is available from this site.
To download and install Bioconductor to your laptop, first log on to the internet. Then open an R session and enter the following;
After doing this download, to download new Bioconductor packages (for example the hexbin package) use the following commands;
Slides and exercises
Script files are posted following each session; these will contain our R code for the exercises. To make them work on your computer, remember to modify file names and locations appropriately. Also note that many different 'correct' solutions are possible.
Special Exercise: This is a more in-depth programming problem, for you to try on Thursday night; we'll discuss it in the final session
For easier searching, here are all the slides in one document (PDF).
Datasets - in alphabetical order
Before trying to read data into your R session, we recommend looking at it first, in a text editor. Is the data comma- or tab-delimited? Does it have a 'header' row containing variable names?
AMDchrom1snpStats.Rdata -- see session 8
Send mail to: see Thomas or Ken in class
Last modified: 7/14/2013