Monthly Archives: December 2012

ggplot2 0.9.3 and plyr 1.8 have been released!

December 6, 2012
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ggplot2 0.9.3 and plyr 1.8 have been released!

We’re pleased to announce new versions of ggplot2 (0.9.3) and plyr (1.8).  To get up and running with the new versions, start a clean R session without ggplot2 or plyr loaded, and run install.packages(c("ggplot2", "gtable", "scales", "plyr")). Read on to find out what’s new. ggplot2 0.9.3 Most of the changes version 0.9.3 are bug fixes. Perhaps

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Link to Item Response Theory Presentations Using R

December 6, 2012
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After my post on item response theory,  a number of you have asked for links to applications that provide R code.  As I noted in that post, a good deal of work is being done in an area of research called patient-related outcome measurement (P...

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To reject random walk in climate

December 6, 2012
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To reject  random walk in climate

I read the post The surprisingly weak case for global warming and the rejection; Climate: Misspecified. Based on the first, I wanted to make a post, just to write I agree with the second.The post features a number of plots like thisFor m...

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Learn R by trying R

December 6, 2012
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Learn R by trying R

By Revolution Analytics training manager James Peruvankal If you are new to R, and want to get an introduction to the R language, in the classic “learning by doing way”, Code school and O’Reilly have put together the Try R interactive tutorial. This tutorial is a painless introduction to the R programming language. During the course you'll become familiar...

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A Cheap Criticism of p-Values

December 6, 2012
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One of these days I am going to finish my series on problems with how NHST is issued in the social sciences. Until then, I came up with a cheap criticism of p-values today. To make sense of my complaint, you’ll want to head over to Andy Gelman’s blog and read the comments on his

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R Package for Hierarchical Bayesian species distribution models now available

December 6, 2012
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  hSDM: hierarchical Bayesian species distribution models Ghislain Vieilledent, Andrew M. Latimer, Alan E. Gelfand, Cory Merow, Adam M. Wilson, Frederic Mortier and John A. Silander Jr hSDM is an R package for estimating parameters of hierarchic...

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Again with variability of long-short decile tests

December 6, 2012
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Again with variability of long-short decile tests

A simpler approach to producing the variability. Previously The post “Variability in long-short decile strategy tests” proposed a way of assessing the variability of strategy tests in which a long-short portfolio is created by equally weighting the top and bottom deciles. Improved idea Joe Mezrich suggests maintaining equal weights but bootstrapping the assets within the … Continue reading...

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Flexibly outlining a set of points with alphahull

December 6, 2012
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Flexibly outlining a set of points with alphahull

We’ve previously covered the convex hull here at is.R(), and in that post I admitted that I was somewhat hard-pressed to come up with a common use-case — at least for Political Science applications. Well, today’s Gist illustrates the...

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Reconstruct Gene Networks Using Shiny

December 6, 2012
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Reconstruct Gene Networks Using Shiny

Check out the application on Glimmer!  http://glimmer.rstudio.com/qbrc/grn/   We’ve been experimenting with RStudio’s new Shiny software as a way to quickly and easily create interactive, responsive web applications which are able to leverage complicated analytics back-ends built in the R programming language. We created a simple interface which can infer the structure of an underlying

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One R package for all your taxonomic needs

December 6, 2012
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UPDATE: there were some errors in the tests for taxize, so the binaries aren't avaiable yet. You can install from source though, see below. Getting taxonomic information for the set of species you are studying can be a pain in the ass. You have to manually type, or paste in, your species one-by-one. Or, if you are lucky, there is...

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