Rcpp 0.8.2

June 10, 2010
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A bug fix release Rcpp version 0.8.2 is now on CRAN and Debian. It contains some fixes for Sun compiler, but no user-visible changes and complements the Rcpp 0.8.1 release made Tuesday. Our thanks to Brian Ripley for help with the portability tests ...

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RcppArmadillo 0.2.2

June 9, 2010
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Following the Rcpp 0.8.1 release we made yesterday, we released RcppArmadillo release 0.2.2 this morning. RcppArmadillo uses Rcpp (and some 'glue' code) to provide a transparent interface from R to Conrad Sanderson's impressive Armadillo library for li...

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RcppArmadillo 0.2.2

Following the Rcpp 0.8.1 release we made yesterday, we released RcppArmadillo release 0.2.2 this morning. RcppArmadillo uses Rcpp (and some 'glue' code) to provide a transparent interface from R to Conrad Sanderson's impressive Armadillo library for...

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Data Mining with WEKA example implemented in R

June 9, 2010
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Data Mining with WEKA example implemented in R

IBM Developer Works has several new articles on Data Mining with WEKA by Michael Abernethy. I decided to implement the example provided in the first article in the series using R. I realize that I could have used WEKA through R (using the RWeka packa...

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3 lines of R code to Process a Web Service

June 9, 2010
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3 lines of R code to Process a Web Service

Ruby is well known for its terse syntax and ability to process web services. I prefer JSON (Javascript Object Notation) to XML whenever possible. For example, a script to retrieve a list of World Bank Data takes all of three lines of code (after in...

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Thoughts on Making Data Work

June 9, 2010
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I really enjoyed all four talks at today's online conference, Making Data Work. (Disclosure: Revolution sponsored this conference.) I thought the four speakers together gave a great overview of issues related to the processing, analysis, and visualization of big data. Mike Driscoll started off with a useful categorization for data size. "Small Data" (<10Gb) fits in the memory of...

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Pegging your multicore CPU in Revolution R, Good and Bad

June 9, 2010
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Pegging your multicore CPU in Revolution R, Good and Bad

I take an almost unhealthy pleasure in pushing my computer to its limits. This has become easier with Revolution R and its free license for academic use. One of its best features is debugger that allows you to step through … Continue reading →

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Efficient Mixed-Model Association eXpedited (EMMAX) to Simutaneously Account for Relatedness and Stratification in Genome-Wide Association Studies

June 9, 2010
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A few months ago I covered an algorithm called EMMA (Efficient Mixed-Model Association) implemented in R for simultaneously correct for both population stratification and relatedness in an association study. This method/software is very useful because ...

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Stratified sampling

June 9, 2010
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Stratified sampling

The recently arXived paper of Goldstein, Rinott and Scarsini studies the impact of refining a partition on the precision of a stratified maximising/integration Monte Carlo approach. Quite naturally, if the partition gets improved, simulating points in each set of the partition can only improve the quality of the approximation, whether the problem is in maximising

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Go Guerrill-R on Your Data in August

June 8, 2010
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Go Guerrill-R on Your Data in August

Guerrill-R, get it? Register now for the Guerrilla Data Analysis Techniques (GDAT) class to be held during the week of August 9-13, 2010. The focus will be on using R and the PDQ-R for computer performance analysis and capacity planning.(Click on the...

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Plotting World Bank Data with R

June 8, 2010
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Plotting World Bank Data with R

Copy and paste the code listed in this post below, and you can create a plot of World Bank data using R with a call like the following:plotWorldBank('USA','NY.GDP.MKTP.KD.ZG')There is a wealth of economic and demographic available at the World Bank. ...

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Rcpp 0.8.1

June 8, 2010
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Early this morning I sent Rcpp version 0.8.1 off to CRAN and Debian. In the meantime, Romain has already provided a very nice blog post about it. There are a few fairly visible new things in this release. As we want to focus the next few minor release...

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Rcpp 0.8.1

Early this morning I sent Rcpp version 0.8.1 off to CRAN and Debian. In the meantime, Romain has already provided a very nice blog post about it. There are a few fairly visible new things in this release. As we want to focus the next few minor rel...

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PostGIS in Action Book Review

June 8, 2010
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PostGIS in Action Book Review

I was recently asked to review a soon to be published book on PostGIS, a spatial extension to the very popular Postgresql relational database. I was very excited about receiving an early copy of this book, as the authors have provided countless tips, ...

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R is eve R ywhe R e

June 8, 2010
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R is eve R ywhe R e

R did definitely not start to be THE statistical computing tool. The “two Rs” in far down-under just needed some tool which was not too expensive and structured enough to support the elementary statistics classes filled with hundreds of students. Another constraint was the computing lab which was large enough, but “only” filled with Mac

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Norman Nie talks R and statistics with CNET’s Dave Rosenberg

June 8, 2010
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Revolution's CEO Norman Nie recently gave an interview to CNET's Dave Rosenberg, who blogs on disrupting the software market. Among the topics covered: What is R (Nie: "R is the most powerful statistical computing language on the planet"), what is predictive analytics ("statistical modeling by another name") and plans for Revolution R ("we intend to bring predictive analytics to...

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Rcpp 0.8.1

June 8, 2010
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We released Rcpp 0.8.0 almost a month ago. It finalized our efforts in designing a better, faster and more natural API than any version of Rcpp ever before. The journey from Rcpp 0.7.0 to

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Could we run a statistical analysis on iPhone/iPad using R?

June 8, 2010
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Could we run a statistical analysis on iPhone/iPad using R?

Imprtent update to the post (17.07.10) I now came across David smith’s post on the REvolution blog, pointing to instruction on the R wiki for how to install R on the iPhone! I didn’t try it myself since it both requires jailbreaking the iPhone, and I don’t have an iPhone. But it is still interesting to know of. Preface...

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What is R?

June 7, 2010
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Probably the question I get asked the most about R is, "What is R"? It's can be a hard question to answer, because R is so many things. It's data analysis software. It's an environment for data analysis. It's a language. It's an open-source project. It's a community. The Wikipedia page for R does a great job of describing...

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Ruby Script to parse ISBNs listed in R-Project to populate an Amazon

June 7, 2010
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Ruby Script to parse ISBNs listed in  R-Project to populate an Amazon

As you probably figured out, I am an Amazon affiliate and have been giving some thought to how to get the best lists of R books available at Amazon. To get the list of ISBNs from R-Project, the following Ruby script did the trick:require 'rubygems'req...

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Example 7.40: Nelson-Aalen plotting

June 7, 2010
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Example 7.40: Nelson-Aalen plotting

In our previous entry, we described how to calculate the Nelson-Aalen estimate of cumulative hazard. In this entry, we display the estimates for the time to linkage to primary care for both the treatment and control groups in the HELP study.RWe use the...

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An Interest Rate R Package Plan

An Interest Rate R Package Plan

I recently have done some empirical studies on zero-coupon bond modelling and pricing, and plan to create an interest rate R package in order to make it re-usable, as I find there are only two R package on it, one is http://cran.r-project.org/web/pack...

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Using R for Introductory Statistics 3.2

June 6, 2010
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Using R for Introductory Statistics 3.2

...continuing my sloth-like progress through John Verzani's Using R for Introductory Statistics. Previous installments: Chapters 1 and 2 and 3.1. Comparing independent samples Boxplots provide a visual comparison between two or more distributions. Fo...

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Using R for Introductory Statistics 3.2

June 6, 2010
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Using R for Introductory Statistics 3.2

...continuing my sloth-like progress through John Verzani's Using R for Introductory Statistics. Previous installments: Chapters 1 and 2 and 3.1. Comparing independent samples Boxplots provide a visual comparison between two or more distributions. Fo...

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biomaRt and GenomeGraphs: a worked example

June 6, 2010
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biomaRt and GenomeGraphs: a worked example

As promised a few posts ago, another demonstration of the excellent biomaRt package, this time in conjunction with GenomeGraphs. Here’s what we’re going to do: Grab some public microarray data Normalise and get a list of the most differentially-expressed probesets Use biomaRt to fetch the genes associated with those probesets Plot the data using GenomeGraphs

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General steps to compile JAGS in a Linux based OS system and install rjags in R

June 6, 2010
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I have an entry here about how to install JAGS and rjags in Fedora.  However, I have exchanged emails with Robert Dorazio and Dr. Martyn Plummer.  Here are the easier steps to compile JAGS and install rjags in R. 1. After you extract the source code...

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General steps to compile JAGS in a Linux based OS system and install rjags in R

June 6, 2010
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I have an entry here about how to install JAGS and rjags in Fedora.  However, I have exchanged emails with Robert Dorazio and Dr. Martyn Plummer.  Here are the easier steps to compile JAGS and install rjags in R. 1. After you extract the source code...

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JAGS, rjags, and coda packages for Fedora

June 6, 2010
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Christopher has the RPMs (for Fedora users) for JAGS, coda, and rjags on his blog. The specific blog entry is here: http://cddesjardins.wordpress.com/2010/06/04/jags-package-for-fedora-13-64-bit/ If you have trouble installing JAGS or rjags in Fedora,...

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JAGS, rjags, and coda packages for Fedora

June 6, 2010
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Christopher has the RPMs (for Fedora users) for JAGS, coda, and rjags on his blog. The specific blog entry is here: http://cddesjardins.wordpress.com/2010/06/04/jags-package-for-fedora-13-64-bit/ If you have trouble installing JAGS or rjags in Fedora,...

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