IBRO

C. elegans teaching materials and exercises for 2015 IBRO in Vancouver

• Habituation_probability directory is a project directory for doing analysis of Multi-worm Tracker (Swierczek et al., 2011) habituation experiments using reversal probability as the behavioural metric. See the README.md within the Habituation_probability sub-directory

• Readings directory contains relevant reading material for performing experiments and doing analysis on the Multi-worm Tracker (Swierczek et al., 2011).

Software to install (for analysis only)

If you use a Mac

• Bash Shell: Terminal (found in /Applications/Utilities on your computer)
• Git (http://sourceforge.net/projects/git-osx-installer/files/latest/download)
• Xcode (required for Git, https://itunes.apple.com/us/app/xcode/id497799835?ls=1&mt=12)
• R (http://cran.r-project.org/bin/macosx/R-latest.pkg)
• R libraries: stringr, plyr, binom, ggplot2, multcomp

If you use Windows

• Git Bash (http://msysgit.github.io/)
• Git (installed above with Git Bash)
• R (http://cran.r-project.org/bin/windows/base/release.htm)
• R libraries: stringr, plyr, binom, ggplot2, multcomp

If you use Linux

• Bash Shell: The default shell is usually bash, but if your machine is set up differently you can run it by opening a terminal and typing bash. There is no need to install anything.
• Git: If Git is not already available on your machine you can try to install it via your distro's package manager. For Debian/Ubuntu run sudo apt-get install git and for Fedora run sudo yum install git.
• R: You can download the binary files for your distribution from CRAN. Or you can use your package manager (e.g. for Debian/Ubuntu run sudo apt-get install r-base and for Fedora run sudo yum install R). Also, please install the RStudio IDE.
• R libraries: stringr, plyr, binom, ggplot2, multcomp

Software Installation instructions are courtesy of Software Carpentry (http://software-carpentry.org/)