Grolemund, G., and Wickham, W. 2016. R for Data Science. The book is in progress and can be found online at http://r4ds.had.co.nz/
Whitlock, W.C. and Schluter, D. (2014) The Analysis of Biological Data, Second Edition. Roberts and Company Publishers. http://www.amazon.com/Analysis-Biological-Data-Second-Edition/dp/1936221489 with more info at http://whitlockschluter.zoology.ubc.ca/
I will be drawing on examples and materials from a few other sources. They include wonderful examples of R code in the context of data analysis. You are not required to have these, but you will either find them useful in this course or in future endeavors.