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#### Summary: We define the Cholesky-based parameterization, but don't mention that they're more efficient and more numerically stable. #### Description: This should go in the functions reference for the Cholesky-based...

bob-carpenter

Update Stan users guide chapter on HMMs

8

#### Summary: The section on HMMs (under Time-Series models: https://mc-stan.org/docs/stan-users-guide/time-series.html#hmms.section) in the Stan users guide currently doesn't use Stan's dedicated functions for HMMs (described here: https://mc-stan.org/docs/functions-reference/hidden_markov_models.html). I'll update the section...

charlesm93

#### Summary: The "The log odds and standard errors can be defined in a transformed parameter block" should be "The log odds and standard errors can be defined in a...

yizhang-yiz

#### Summary: User Aboottogo in [this post](https://discourse.mc-stan.org/t/example-in-computing-1d-integral-my-misunderstanding-or-a-typo/36958?u=bob_carpenter), reported an error in an example here: https://mc-stan.org/docs/stan-users-guide/one-dimensional-integrals.html #### Description: [quote="Aboottogo, post:1, topic:36958"] ``` target += normal_lpdf(y | mu, sigma); target += log(integrate_1d(normal_density,...

bob-carpenter

fix usage of samples vs. draws

2

#### Summary: We should be using "sample" to mean a multi-set of draws and "draw" to indicate a single draw from a sampler. We should not be saying "take N...

bob-carpenter

Exponential distribution parameter

2

In the definition of the exponential distribution with the scale parameter beta, the probability density function should be \begin{equation*} \text{Exponential}(y|\beta) = \frac{1}{\beta} \, \exp ( -\frac{y}{\beta} ) . \end{equation*} https://mc-stan.org/docs/functions-reference/positive_continuous_distributions.html#exponential-distribution...

nathoze

Docs repo is too big to deploy

4

The [GitHub Pages limits](https://docs.github.com/en/pages/getting-started-with-github-pages/github-pages-limits) page states that you will not be able to serve a github pages repository that is larger than 1GB, which as of this morning our deployment...

WardBrian

We should include a renewal model---they're popular for tracking infectious diseases. Here's the basic model with Stan code and CmdStanPy simulation. ```stan functions { real random_walk_lpdf(vector y, real sigma, real...

bob-carpenter

Categorical logit generalized linear model (softmax regression): inconsistent notation for matrix sizes

1

Small nitpick: Uses $\times$ for $x$ but $\cdot$ for $\beta$. I'd be happy to open a PR to change this to $\times$, which appears to be used more consistently.

vandenman

Issue/870 affine xform clarification

4

#### Submission Checklist - [x] Builds locally - [x] New functions marked with `` `` - [x] Declare copyright holder and open-source license: see below #### Summary Minor clarifications to...

mitzimorris