Blog Archives

Typos in Introduction to Monte Carlo Methods with R

October 12, 2011
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Typos in Introduction to Monte Carlo Methods with R

The two translators of our book in Japanese, Kazue & Motohiro Ishida, contacted me about some R code mistakes in the book. The translation is nearly done and they checked every piece of code in the book, an endeavour for which I am very grateful! Here are the two issues they have noticed (after incorporating

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Le Monde puzzle [#743]

October 11, 2011
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Le Monde puzzle [#743]

As Le Monde weekend has yet again changed its format (with so much more advertisements for luxurious items that I sometimes wonder whether or not this is the weekend edition of Le Monde!], it took me a while to locate the mathematical puzzle. The good news is there now is a science&techno leaflet with, at

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understanding computational Bayesian statistics

October 9, 2011
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understanding computational Bayesian statistics

I have just finished reading this book by Bill Bolstad (University of Waikato, New Zealand) which a previous ‘Og post pointed out when it appeared, shortly after our Introducing Monte Carlo Methods with R. My family commented that the cover was nicer than those of my own books, which is true. Before I launch into

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FFT / Power Spectrum Box-and-Whisker Plot with Gggplot2

October 6, 2011
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I have a bunch of time series whose power spectra (FFT via R's spectrum() function) I've been trying to visualize in an intuitive, aesthetically appealing way. At first, I just used lattice's bwplot, but the spacing of the X-axis here really matters. ...

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Bat Country

October 6, 2011
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Bat Country

I've spent a lot of time thinking about and using R's spectrum() function and the Fast Fourier Transform (FFT) in the last 5+ years. Lately, they've begun to remind me a little of a Theremin: simple to use, difficult to master. While prepping a figur...

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Bessel integral

September 28, 2011
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Bessel integral

Pierre Pudlo and I worked this morning on a distribution related to philogenic trees and got stuck on the following Bessel integral where In is the modified Bessel function of the first kind. We could not find better than formula 6.611(4) in Gradshteyn and Ryzhik. which is for a=0… Anyone in for a closed form

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workshop in Columbia [day 3]

September 26, 2011
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workshop in Columbia [day 3]

Although this was only a half-day of talks, the third day of the workshop was equally thought-challenging and diverse.  (I managed to miss the ten first minutes by taking a Line 3 train to 125th street, having overlooked the earlier split from Line 1… Crossing south Harlem on a Sunday morning is a fairly mild

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Handbook of Markov chain Monte Carlo

September 21, 2011
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Handbook of Markov chain Monte Carlo

At JSM, John Kimmel gave me a copy of the Handbook of Markov chain Monte Carlo, as I had not (yet?!) received it. This handbook is edited by Steve Brooks, Andrew Gelman, Galin Jones, and Xiao-Li Meng, all first-class jedis of the MCMC galaxy. I had not had a chance to get a look at

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About commercial publishers

September 19, 2011
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About commercial publishers

Julien Cornebise has pointed out a recent Guardian article. It is about commercial publishers of academic journals, mainly Elsevier, Springer, and Wiley, with a clear stand from its title: “Academic publishers make Murdoch look like a socialist“! The valuable argument therein is that academic publishers make hefty profits (a 40% margin for Elsevier!)

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Testing and significance

September 12, 2011
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Testing and significance

Julien Cornebise pointed me to this Guardian article that itself summarises the findings of a Nature Neuroscience article I cannot access. The core of the paper is that a large portion of comparative studies conclude to a significant difference between protocols when one protocol result is significantly different from zero and the other one(s) is(are)

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