R is a free general statistical computing language. Over the past several years, the phylogenetics community has been developing software for various tree-based analyses using this language. We will be using several of these analyses during the workshop. To get ready, you'll need to install the basic R package and then install various software packages. To do so:
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go to the
![[WWW]](http://wikispot.org/wiki/eggheadbeta/img/sycamore-www.png)
R website and install the basic R package.
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once its installed, run the application.
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under the 'Packages & Date' Menu, select 'Package Installer'.
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When the 'R Package Installer' window appears, choose 'CRAN (binaries)' in the top dropdown box and hit the 'Get List' button.
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Select the following packages:
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APE
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ade4
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OUCH
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GEIGER
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choose 'At System Level' for the install location
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check the 'install dependencies' box.
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Finally, hit the 'Install Selected' button.
There's a tutorial on R for phylogenetics here; Emmanuel Paradis, one of the authors of APE, has a book on "Analysis of phylogenetics and evolution with R" that is also quite helpful.
