_pkgdown.yml

url: https://primarycensored.epinowcast.org/
template:
  package: enwtheme
  math-rendering: mathjax

development:
  mode: auto

navbar:
  structure:
    left: [intro, metareference, articles, news]
    right: [search, github, lightswitch]
  components:
    metareference:
      text: Reference
      menu:
      - text: R reference
        href: reference/index.html
      - text: Stan reference
        href: https://primarycensored.epinowcast.org/stan/
    articles:
      text: Articles
      menu:
      - text: How to use primarycensored with Stan
        href: articles/using-stan-tools.html
      - text: Fitting distributions using primarycensored and cmdstan
        href: articles/fitting-dists-with-stan.html
      - text: Fitting distributions using primarycensored and fitdistrplus
        href: articles/fitting-dists-with-fitdistrplus.html
      - text: Why it works
        href: articles/why-it-works.html
      - text: Analytic solutions for censored delay distributions
        href: articles/analytic-solutions.html

authors:
  Sam Abbott:
    href: "https://www.samabbott.co.uk/"

reference:
- title: Primary event censored distribution functions
  desc: Functions for generating, evaluating density, and computing cumulative probabilities of primary event censored distributions
  contents:
  - has_concept("primarycensored")
- title: Primary event distributions
  desc: Probability density and random generation functions for primary event distributions
  contents:
  - has_concept("primaryeventdistributions")
- title: Primary censored distribution class and methods
  desc: S3 class and methods for computing primary event censored distributions, focusing on the internal machinery used by the package. Unlike the primary event distributions section which deals with specific distribution functions, this section covers the general framework for handling censored distributions.
  contents:
  - has_concept("pcens")
- title: Distribution checking functions
  desc: Functions to validate cumulative distribution functions (CDFs) and probability density functions (PDFs)
  contents:
  - has_concept("check")
- title: Tools for working with package Stan functions
  desc: Utility functions for interfacing with Stan models and extracting results
  contents:
  - has_concept("stantools")
- title: Wrappers facilitating the use of other modelling packages
  desc: Functions that wrap around external packages like fitdistrplus to fit distributions to doubly censored data
  contents: has_concept("modelhelpers")