My talk on doing phylogenetics in R

I gave a talk today on doing very basic phylogenetics in R, including getting sequence data, aligning sequence data, plotting trees, doing trait evolution stuff, etc. Please comment if you have code for doing bayesian phylogenetic inference in R. I know phyloch has function mrbayes, but can’t get it to work… Phylogenetics in R View more presentations from schamber

November 18, 2011 · 1 min · Scott Chamberlain

My little presentation on getting web data through R

With examples from rOpenSci R packages. p.s. I am no expert at this... Web data from R View more presentations from schamber

October 28, 2011 · 1 min · Scott Chamberlain

R talk on regular expressions (regex)

Regular expressions are a powerful in any language to manipulate, search, etc. data. For example: > fruit <- c("apple", "banana", "pear", "pineapple") > fruit [1] "apple" "banana" "pear" "pineapple" > grep("a", fruit) # there is an "a" in each of the words [1] 1 2 3 4 > > strsplit("a string", "s") # strsplit splits the string on the "s" [[1]] [1] "a " "tring" R base has many functions for regular expressions, see slide 9 of Ed’s talk below....

October 6, 2011 · 1 min · Scott Chamberlain

R tutorial on visualizations/graphics

Rolf Lohaus, a Huxley postdoctoral fellow here in the EEB dept at Rice University, gave our R course a talk on basic visualizations in R this morning. Enjoy!

September 30, 2011 · 1 min · Scott Chamberlain

Ten Simple Rules for OA Publishers talk by Philip Bourne

Ten Simple Rules for Open Access Publishers View more presentations from Philip Bourne

September 23, 2011 · 1 min · Scott Chamberlain

@drewconway interview on @DataNoBorders at the Strata conference

The O’Reilly Media Strata Summit has many interviews on YouTube (just search YouTube for it)Drew Conway is the author of a R packages, including infochimps, an R wrapper to the Infochimps API service. The YouTube video:

September 22, 2011 · 1 min · Scott Chamberlain

Open science talk by Carl Boettiger

Carl Boettiger gave a talk on the topic of open science to incoming UC Davis graduate students. Here is the audio click here Here are the slides clickhere

September 22, 2011 · 1 min · Scott Chamberlain

My take on an R introduction talk

UPDATE: I put in an R tutorial as a Github gist below. Here is a short intro R talk I gave today…for what it’s worth… R Introduction View more presentations from schamber Here’s the tutorial in a GitHub gist:

September 9, 2011 · 1 min · Scott Chamberlain

FigShare Talk

FigShare - I very much like this idea of a place to put your data online that is NOT published. Dryad is a nice place for datastes linked with published papers, but there isn’t really a place for datasets that perhaps did not make the cut for a published paper, and if known to the scientific community, could potentially help resolve the “file-drawer” effect in meta-analyses. (wow, run on sentence)...

September 8, 2011 · 1 min · Scott Chamberlain

Jonathan Eisen on the Fourth Domain and Open Science

Stalking the Fourth Domain with Jonathan Eisen, Ph D from mendelspod on Vimeo.

September 6, 2011 · 1 min · Scott Chamberlain