Blog Archives

basic ggplot2 network graphs

March 17, 2011
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basic ggplot2 network graphs

I have been looking around on the web and have not found anything yet related to using ggplot2 for making graphs/networks. I put together a few functions to make very simple graphs. The bipartite function especially is not ideal, as of course we only w...

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Five ways to visualize your pairwise comparisons

March 5, 2011
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Five ways to visualize your pairwise comparisons

In data analysis it is often nice to look at all pairwise combinations of continuous variables in scatterplots. Up until recently, I have used the function splom in the package lattice, but ggplot2 has superior aesthetics, I think anyway.Here a fe...

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Phenotypic selection analysis in R

February 24, 2011
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Phenotypic selection analysis in R

I have up to recently always done my phenotypic selection analyses in SAS. I finally got some code I think works to do everything SAS would do. Feedback much appreciated!########################Selection analyses#############################install.pac...

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Troubling news for the teaching of evolution

February 9, 2011
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Troubling news for the teaching of evolution

A recent survey reported in Science ("Defeating Creationism in the Courtroom, but not in the Classroom"),  suggests that high school teachers are not teaching evolution to the fullest extent, say, that grammar is being taught in the English c...

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Good riddance to Excel pivot tables

January 30, 2011
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Good riddance to Excel pivot tables

Excel pivot tables have been how I have reorganized data...up until now. These are just a couple of examples why R is superior to Excel for reorganizing data:################ Good riddance to pivot tables ############library(reshape2)library(plyr)&nbsp...

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R and Google Visualization API: Fish harvests

January 17, 2011
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R and Google Visualization API: Fish harvests

I recently gathered fish harvest data from the U.S. National Oceanic and Atmospheric Administarion (NOAA), which I downloaded from Infochimps. The data is fish harvest by weight and value, by species for 21 years, from 1985 to 2005. Here is a link to a google document of the data I used below: https://spreadsheets.google.com/ccc?key=0Aq6aW8n11tS_dFRySXQzYkppLXFaU2F5aC04d19ZS0E&hl=en################# Fish harvest data...

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R and Google Visualization API: Wikispeedia

January 17, 2011
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R and Google Visualization API: Wikispeedia

Wikispeedia is a website trying to gather all speed limit signs on Earth.  I recently created a Google Visualization for some of their data, specifically on speed limit signs that change speed throughout the day.Check it out here: http://grou...

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Bipartite networks and R

January 14, 2011
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Bipartite networks and R

Earlier, I posted about generating networks from abundance distributions that you specify. If this post was interesting, check out Jeff Kilpatrick's website, where he provides code he produced in R and Octave to compare real bipartite networks to ones ...

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just for fun: Recovery.gov data snooping

January 11, 2011
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just for fun: Recovery.gov data snooping

Okay, so this isn't ecology related at all, but I like exploring data sets. So here goes...Propublica has some awesome data sets available at their website: http://www.propublica.org/tools/I played around with their data set on Recovery.gov (see hyperl...

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R and Google Visualization API

January 8, 2011
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R and Google Visualization API

R interfaces with the powerful Google Visualization API with the package googleVis (see here). It's relatively easy to convert your graphics in R to interactive graphics to post on a web browser. And the graphics are quite nice, as seen below in a simple graph of some of my data collected from this summer on seed predation to...

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