Blog Archives

Stan JSS paper out: “Stan: A probabilistic programming language”

January 13, 2017
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Stan JSS paper out:  “Stan: A probabilistic programming language”

As a surprise welcome to 2017, our paper on how the Stan language works along with an overview of how the MCMC and optimization algorithms work hit the stands this week. Bob Carpenter, Andrew Gelman, Matthew D. Hoffman, Daniel Lee, Ben Goodrich, Michael Betancourt, Marcus Brubaker, Jiqiang Guo, Peter Li, and Allen Riddell. 2017. Stan: […] The post Stan JSS paper out: “Stan: A probabilistic programming language” appeared first on…

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Stan 2.14 released for R and Python; fixes bug with sampler

January 2, 2017
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Stan 2.14 released for R and Python; fixes bug with sampler

Stan 2.14 is out and it fixes the sampler bug in Stan versions 2.10 through 2.13. Critical update It’s critical to update to Stan 2.14. See: RStan 2.14.1 PyStan 2.14.0.0 CmdStan 2.14.0 The other interfaces will update when you udpate CmdStan. The process After Michael Betancourt diagnosed the bug, it didn’t take long for him […] The post Stan 2.14 released for R and Python; fixes bug with sampler appeared…

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How to include formulas (LaTeX) and code blocks in WordPress posts and replies

December 24, 2016
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How to include formulas (LaTeX) and code blocks in WordPress posts and replies

It’s possible to include LaTeX formulas like . I entered it as $latex \int e^x \, \mathrm{d}x$. You can also generate code blocks like this for (n in 1:N) y[n] ~ normal(0, 1); The way to format them is to use <pre> to open the code block and </pre> to close it. You can create […] The post How to include formulas (LaTeX) and code blocks in WordPress posts and…

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Michael found the bug in Stan’s new sampler

December 22, 2016
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Michael found the bug in Stan’s new sampler

Gotcha! Michael found the bug! That was a lot of effort, during which time he produced ten pages of dense LaTeX to help Daniel and me understand the algorithm enough to help debug (we’re trying to write a bunch of these algorithmic details up for a more general audience, so stay tuned). So what was […] The post Michael found the bug in Stan’s new sampler appeared first on Statistical…

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Stan 2.10 through Stan 2.13 produce biased samples

December 20, 2016
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Stan 2.10 through Stan 2.13 produce biased samples

[Update: bug found! See the follow-up post, Michael found the bug in Stan’s new sampler] [Update: rolled in info from comments.] After all of our nagging of people to use samplers that produce unbiased samples, we are mortified to have to announce that Stan versions 2.10 through 2.13 produce biased samples. The issue Thanks to […] The post Stan 2.10 through Stan 2.13 produce biased samples appeared first on Statistical…

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Mathematica, now with Stan

October 19, 2016
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Mathematica, now with Stan

Vincent Picaud developed a Mathematica interface to Stan: MathematicaStan You can find everything you need to get started by following the link above. If you have questions, comments, or suggestions, please let us know through the Stan user’s group or the GitHub issue tracker. MathematicaStan interfaces to Stan through a CmdStan process. Stan programs are […] The post Mathematica, now with Stan appeared first on Statistical Modeling, Causal Inference, and…

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A book on RStan in Japanese: Bayesian Statistical Modeling Using Stan and R (Wonderful R, Volume 2)

September 26, 2016
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A book on RStan in Japanese: Bayesian Statistical Modeling Using Stan and R (Wonderful R, Volume 2)

Wonderful, indeed, to have an RStan book in Japanese: Kentarou Matsuura. 2016. Bayesian Statistical Modeling Using Stan and R. Wonderful R Series, Volume 2. Kyoritsu Shuppan Co., Ltd. Google translate makes the following of the description posted on Amazon Japan (linked from the title above): In recent years, understanding of the phenomenon by fitting a […] The post A book on RStan in Japanese: Bayesian Statistical Modeling Using Stan and…

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Stan users group hits 2000 registrations

September 9, 2016
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Stan users group hits 2000 registrations

Of course, there are bound to be duplicate emails, dead emails, and people who picked up Stan, joined the list, and never came back. But still, that’s a lot of people who’ve expressed interest! It’s been an amazing ride that’s only going to get better as we learn more and continue to improve Stan’s speed […] The post Stan users group hits 2000 registrations appeared first on Statistical Modeling, Causal…

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Who owns your code and text and who can use it legally? Copyright and licensing basics for open-source

August 28, 2016
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Who owns your code and text and who can use it legally?  Copyright and licensing basics for open-source

I am not a lawyer (“IANAL” in web-speak); but even if I were, you should take this with a grain of salt (same way you take everything you hear from anyone). If you want the straight dope for U.S. law, see the U.S. government Copyright FAQ; it’s surprisingly clear for government legalese. What is copyrighted? […] The post Who owns your code and text and who can use it legally?…

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Free workshop on Stan for pharmacometrics (Paris, 22 September 2016); preceded by (non-free) three day course on Stan for pharmacometrics

August 25, 2016
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So much for one post a day… Workshop: Stan for Pharmacometrics Day If you are interested in a free day of Stan for pharmacometrics in Paris on 22 September 2016, see the registration page: Stan for Pharmacometrics Day (free workshop) Julie Bertrand (statistical pharmacologist from Paris-Diderot and UCL) has finalized the program: When Who What […] The post Free workshop on Stan for pharmacometrics (Paris, 22 September 2016); preceded by…

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