Here is a quick list of things to do to get started, ideally before the first class:
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Install R and RStudio. Here are a few example videos on how to do this such as this one (for windows). Many other videos are available (search for "install RStudio" in YouTube. Make sure that you are downloading the latest version of R (version 3.1 or above) and RStudio.
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Install all required packages by using the script provided by Brian High. Simply typing
source("installallpkgs.R")in the R console should work. As an alternative you can also also click on the source button in RStudio. This will ensure that you have all necessary packages to reproduce the lecture notes.
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If you have never used R before, please have a look at the following material and links from Rstudio: http://www.rstudio.com/resources/training/online-learning/. In particular, you should go through the following R tutorial: http://tryr.codeschool.com/ and/or the R course provided by DataCamp: https://www.datacamp.com/. You can also look at the R package
swirl, which provides an interactive introduction to R. The swirl website, also provides basic information on how to get started with R and in particular install R and RStudio. -
Familiarize yourself with Bioconductor. Bioconductor has a YouTube channel, which provides many useful screencasts.
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Familiarize yourself with Git and GitHub. Here is a nice YouTube playlist on git and GitHub: https://www.youtube.com/playlist?list=PL5-da3qGB5IBLMp7LtN8Nc3Efd4hJq0kD. You might also want to look at this for a good (and lightweight) overview of GitHub.
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Install the GitHub client for windows or mac. If you're using linux/unix, I assume that you know what you're doing and don't need this. RStudio also provide an integrated git client. We will discuss this in class.