Markov Chain Monte Carlo for Bayesian Inference – The Metropolis Algorithm

Markov Chain Monte Carlo for Bayesian Inference – The Metropolis Algorithm(quantstart.com)

87 points by shogunmike 10 years ago | 9 comments

Houshalter 10 years ago |

I'm sad that every explanation of MCMC uses complicated symbolic explanations. I was trying to explain it once and came up with a fairly intuitive way to visualize it. Probably that is the way it was first discovered, though who knows.

In words, you can visualize it as doing a random walk around the area of a probability graph. Then it just turns into an explanation of why random walks accurately sample from an area, and the various tricks used in MCMC methods to make random walks more efficient.

Relatedly, bayes theorem makes much more sense when you visualize it, e.g. this post: https://oscarbonilla.com/2009/05/visualizing-bayes-theorem/

warrenmar 10 years ago |

Not to hijack this post, but I'm saddened every time I see anything monte carlo related referred to as the metropolis algorithm. When you're the boss, what you say goes.

http://andrewgelman.com/2014/06/30/invented-metropolis-algor...

shogunmike 10 years ago | |

There is also a bit of historical discussion on Wikipedia about this: https://en.wikipedia.org/wiki/Metropolis%E2%80%93Hastings_al...

constantlm 10 years ago |

This is so incredibly far over my head.

doug1001 10 years ago | |

it's not. set aside for a moment the prose description, find an MH module in your language of choice and study the code then play around w/ it in the REPL. A couple of things will probably surprise you when you look at an MCMC implementation (either MH or Gibbs): (i) very compact (eg, MH ~ 40 loc in python; 120 in scala; Gibbs ~10 lines in python, ~40 in scala); and (ii) the primary data structures are ones you probably use every day (eg, 2D array, which is used to represent the transition probabilities among the nodes comprising the graph that models the random walk). (A python/numpy implementation of MH: http://isaacslavitt.com/2013/12/30/metropolis-hastings-and-s...)

douche 10 years ago | |

Yup, going to have to save this for later... I vaguely remember a Metropolis Light Transport from my college graphics course, which I assume uses similar sampling methodology

agumonkey 10 years ago | | |

I came here to .. too late.

adenadel 10 years ago | |

This could potentially help http://jeremykun.com/2015/04/06/markov-chain-monte-carlo-wit...

If you're unfamiliar with Bayes Theorem and Bayesian inference the earlier articles from the OP might help.

shogunmike 10 years ago | | |

Also, John Kruschke's "Doing Bayesian Data Analysis", aka the "Puppy Book", is a gentle introduction to Bayesian inference. It is very readable, especially with regards MCMC.