Blog Archives

Bugs [genuine]

July 21, 2010
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Bugs [genuine]

Nothing related with programming, I am afraid! Just a few bugs visiting my passion vine… I find the green bugs quite interesting with their back “engravings”, even though they are most likely pests … Filed under: pictures, ...

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The wonderful world of vim

July 20, 2010
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The wonderful world of vim

When searching for a way to recover control carriage return symbols ^M into genuine ones (under vim), I found this handy page of vim tips. And then saw that the enthusiastic author had even a blog about vim! Obviously, this post will be meaningless for all readers not aware of the joys of the vim

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CoRe in CiRM [end]

July 17, 2010
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CoRe in CiRM [end]

Back home after those two weeks in CiRM for our “research in pair” invitation to work on the new edition of Bayesian Core, I am very grateful for the support we received from CiRM and through it from SMF and CNRS. Being “locked” away in such a remote place brought a considerable increase in concentration

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CoRe in CiRM [6]

July 15, 2010
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CoRe in CiRM [6]

This is the last day at CiRM for our “research in pair” working on the new edition of Bayesian Core. I mostly completed the revision of the chapter on Bayesian imaging, including stuff on Markov random fields and mainly on ABC algorithms. All that remains to be done about this chapter is the processing of

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Multidimension bridge sampling (CoRe in CiRM [5])

July 13, 2010
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Multidimension bridge sampling (CoRe in CiRM [5])

Since Bayes factor approximation is one of my areas of interest, I was intrigued by Xiao-Li Meng’s comments during my poster in Benidorm that I was using the “wrong” bridge sampling estimator when trying to bridge two models of different dimensions, based on the completion (for and missing from the first model) When revising the

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A quantum leap (CoRe in CiRM [4])

July 12, 2010
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A quantum leap (CoRe in CiRM [4])

Today, as I was trying to install SpatialEpi to use the Scotland lip cancer data in the last chapter of Bayesian Core, I realised my version of R, R Version 2.6.1, was hopelessly out of date! As I am also using Hardy Heron, a somehow antiquated version of Ubuntu on my Mac, upgrading R took

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CoRe in CiRM [3]

July 10, 2010
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CoRe in CiRM [3]

Still drudging along preparing the new edition of Bayesian Core. I am almost done with the normal chapter, where I also changed the Monte Carlo section to include specific tools (bridge) for evidence/Bayes factor approximation. Jean-Michel has now moved to the new hierarchical model chapter and analysed longitudinal  datasets that will constitute the core of

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Core in CiRM [2]

July 8, 2010
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Core in CiRM [2]

We are making slow progress on the normal and regression chapters as we decided to write the package at the same time we revise the chapters… Jean-Michel transformed the variable selection and model choice R codes of the regression chapter into generic functions that will fit within the package. I rewrote the section on testing,

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Core in CiRM [1]

July 6, 2010
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Core in CiRM [1]

Jean-Michel Marin and myself have thus started our “research in pair” in CIRM, Luminy, for a fortnight. We are working on the second edition of Bayesian Core and, despite working round the clock on the project (except for a one hour run around Mont Puget this morning), we are not going as fast as planned…

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Another harmonic mean approximation

June 26, 2010
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Another harmonic mean approximation

Martin Weinberg posted on arXiv a revision of his paper, Computing the Bayesian Factor from a Markov chain Monte Carlo Simulation of the Posterior Distribution, that is submitted to Bayesian Analysis. I have already mentioned this paper in a previous post, but I remain unconvinced of the appeal of the paper method, given that it

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