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News (28/9/2010) Sorry, today's class at 17:00, as is thursday's. (27/9/2010) Remember
that today's class is at 17:00! (23/9/2010) Homework: ex1+ex2 can be submitted till monday. Please email them to me. Tomorrow at 11 homework class. 4th floor big seminar room. (21/9/2010) Tomorrow, 22/9/2010 11:00 class for questions about the homework. You can also come and do the homework there. (20/9/2010) Tomorrow, 21/9/2010 11:00 class to set up computers. (20/9/2010) New R course begins!
Lecture notes and exercises There are three types for every file: .tm for use in TeXmacs, .pdf for reading, and .R for working with in a regular editor. Lecture 1: Basics of R, TeXmacs, Komodo edit. notes: pdf TeXmacs R Lecture 2: More about vectors, sampling, drift. Notes: pdf TeXmacs R Exercise 1: pdf TeXmacs R Reading: Using R for Data Analysis and Graphics Lecture 3: Matrices, loops, Hardy-Weinberg. Notes: pdf TeXmacs R Exercise 2: pdf TeXmacs R Lecture 4: Solution to excercise 1+2, more on Hardy-Weinberg, Fisher's fundamental theorem, loops in R. Notes: pdf TeXmacs R Lecture 5: More of solution to execise 2, functions and apply, sexual reproduction, recombintion and linkage. Notes: pdf TeXmacs R Exercise 3: pdf TeXmacs R Lecture 6: More loops, conditionals, distributions, effective population size and Fst. Notes: pdf TeXmacs R Exercise 4: pdf TeXmacs R Lecture 7: Lists, data Frames, reading from files and coalescents Notes: pdf TeXmacs R You also need the following program: OSX: ms, linux: ms Lecture 8: More lists, strings and regular expressions Notes: pdf TeXmacs R Exercise 5: pdf TeXmacs R Lecture 9: Solution to 3+4, R holes: debugging, objects, speed Notes: pdf TeXmacs R Exercise 3 solution: pdf TeXmacs R Exercise 4 solution: pdf TeXmacs R Schedule
R Documentation: "simpleR - Using R for Introductory Statistics" by John Verzani This is a very nice introduction to R. Pages 1-18 cover most of what we'll learn in the first class. "R for Beginners" by Emmanuel Paradis This is a good introduction to the internals of R, more from a programmers direction. I will go some into the internals of R, but if you want to learn more about how to multiply matrices, more about how to read files, etc., read this. "Using R for Data Analysis and Graphics" by J. H. Maindonald This document mainly talks about doing graphics in R. It has a nice introduction to the windows interface. How to install xemacs and ess on windows (This document is taken from this site) Graph gallery- a cool site that contains pictures of graphs produced by R. This can help you make just the right plot! Function finder - a web page that groups functions in R by what they do. R Data Import/Export - explains how to export data from R to files, and to different database formats. The DBI interface on page 14 is what ROracle also uses, so that section explains some of what we learned in class. The ROracle Package - explains more about interfacing an oracle database from R. It is fairly technical and is a manual of the different functions rather than a tutorial. barney is our internal server, which points to some SQL documentation. Links: Main
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