**Xi'an's Og » R**, and kindly contributed to R-bloggers)

**T**he paper “Exact sampling for intractable probability distributions via a Bernoulli factory” by James Flegal and Radu Herbei got posted on arXiv without me noticing, presumably because it came out just between Larry Brown’s conference in Philadelphia and my skiing vacations! I became aware of it only yesterday and find it quite interesting in that it links the Bernoulli factory method I discussed a while ago and my ultimate perfect sampling paper with Jim Hobert. In this 2004 paper in Annals of Applied Probability, we got a representation of the stationary distribution of a Markov chain as

where

the stopping time *τ* being the first occurrence of a renewal event in the split chain. While is reasonably easy to simulate by rejection (even tohugh it may prove lengthy when *n* is large, simulating from the tail distribution of the stopping time is much harder.

“Obtaining a single draw from π would require an obscene number of draws.”J. Flegal and R. Herbei

**T**he solution of Flegal and Herbei is to use (a) accept-reject, (b) a bound obtained in our paper, and (c) the Bernoulli factory. That is,

where *β* and *M* depend on the minorisation conditions for the Markov chain. The Bernoulli factory is used to generate Bernoulli variables with probability *ap* where

The exact contribution of the paper consists in improving upon Nacu and Peres‘ original algorithm by turning the original function *min{2p,1-w}* into a twice differentiable function. This makes the bound in the sandwiching algorithm of Latuszyński et al. moving from to . As Krzysztof Latuszyński pointed out to me, it is even possible to improve the convergence to an exponential rate for the Bernoulli factory, but this does not bring an improvement in the *[our]* perfect sampling algorithm that motivates the study. The later remains with an infinite expected running time (Blanchet and Meng). This difficulty is reflected in the experiments where an implementation for the normal-gamma posterior required 35 hours of computation, one single call to the Bernoulli factory accounting for 70% of the computing time! The realistic random effect model is rather anticlimactic in that the final outcome of the three pages 19-22 is a single realisation from the exact sampler. Noticeably, no output from the Bernoulli factory was used in any of the examples implemented in the paper. Nonetheless, I find the paper quite interesting from the Bernoulli factory point of view and prone to open new research directions on this “cute” problem.

Filed under: R, Statistics Tagged: Bernoulli, MCMC, perfect sampling

**leave a comment**for the author, please follow the link and comment on their blog:

**Xi'an's Og » R**.

R-bloggers.com offers

**daily e-mail updates**about R news and tutorials on topics such as: visualization (ggplot2, Boxplots, maps, animation), programming (RStudio, Sweave, LaTeX, SQL, Eclipse, git, hadoop, Web Scraping) statistics (regression, PCA, time series, trading) and more...