recology
code and such

RHIPE: An Interface Between Hadoop and RPresented by Saptarshi Guha And this review of methods for interfacing with Hadoop suggests R’s RHIPE is quite nice.

UPDATE: See Carl Boettiger’s functions/package at Github for searching Treebase here. Treebase is a great resource for phylogenetic trees, and has a nice interface for searching for certain types ...

So perhaps you have all figured this out already, but I was excited to figure out how to finally neatly get all the data frames, lists, vectors, etc. out of a nested list. It is as easy as nesting ...

Here is some code to run Phylip’s contrast application from R and get the output within R to easily manipulate yourself. Importantly, the code is written specifically for trait pairs only as the re...

—UPDATE: I am now using code formatting from gist.github, so I replaced the old prettyR code (sorry guys). The github way is much easier and prettier. I hope readers like the change. I wrote earli...