BMI206: Statistical Methods

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Computing Resources

These tutorials and other websites may help you to configure your laptop for the activities in the course and to brush up your programming skills.

    • RNA-seq pipeline tutorials:
    • ChIP-seq pipeline tutorials:
        BioC epigenomics course
    • Package for visualization of embeddings of high-dimensional data, such as single-cell genomics.
    • The UC system gives students online access to many of the Safari books (“the programming books with animals on the cover”). There you can find multiple books on R and Python, though some are too specialized for the purposes of this class.
    • Consider following a style guide to make your code easier to read. (RPython)
    • If you don’t already have it, Homebrew is a great utility for installing/updating applications in OSX. To install it just follow the instructions on the linked page. It does require XCode’s Command Line Tools, which you can get either as a standalone or by installing all of XCode, both of which can be downloaded from the Apple developers site. Once you have Homebrew, installing code like R, or Git, or Mercurial becomes as easy as typing “brew install _program name_” on the command line.
    • If you are using Windows, you might consider installing Cygwin to get some Unix functionality, or running a Linux virtual machine.
    • If you do not already have access to the Wynton cluster, access can be arranged for students in this class. Contact Dr. Pollard to get an account.