_pkgdown.yml

url: https://divDyn.github.io/
home:
  title: R package for diversity dynamics
template:
  opengraph:
    image:
      src: man/figures/logo.png
      alt: The divDyn sticker.
    twitter:
      creator: "@atkocsis"
      card: summary_large_image
  bootstrap: 5
  bootswatch: cosmo
  bslib:
    primary: "#83100d"

navbar:
  structure:
#    left: [tutorials, paper, reference, internals, howtos]
    left: [tutorials, reference, internals, howtos]
    right: [search, github]
  components:
    tutorials:
      text: Tutorials
      menu:
        - text: "1. Installation"
          href: articles/divDyn_1_installation.html 
        - text: "2. Handout"
          href: articles/divDyn_2_handout.html
    # paper:
    #   text: ddPhanero 
    #   menu:
    #     - text: "Current version"
    #       href: articles/icosa_1_installation.html 
    #     - text: "Past versions"
    #       href: articles/icosa_1_installation.html 
    internals:
      text: Internals
      menu: 
      - href: news/index.html
        text: Changelog 
      # - href: articles/archive.html
      #   text: Package archive 
    howtos:
      text: How-to guides on EvolvED
      href: "https://www.evolv-ed.net/"

reference:
- title: Diversity dynamics
  desc: >
    Primary functions to calculate variables fo diversity dynamics, i.e. richness,
    origination and extinction rates and sampling.
  contents:
  - divDyn
  - binstat
  - indices
  - ratesplit
  - sumstat
- title: Sampling standardization 
  desc: >
    Wrapper function and algorithms used for sampling-standardization via subsampling. 
  contents:
  - subsample
  - subtrialCR
- title: Auxilliary functions 
  desc: >
    Additional functions relevant for complex analyses of diversity dynamics.
  contents:
  - georange
  - fadlad
  - survivors
  - affinity
  - singletons
  - modeltab
  - matchtime
  - cleansp
  - omit
  - tabinate
- title: Plotting tools 
  desc: >
    Tools that help visualize paleobiological data.
  contents:
  - tsplot
  - tsbars
  - shades
  - parts
  - ranges
- title: Example data
  desc: >
    Data examples to demonstrate the structure the package was designed to work with. 
  contents:
  - corals
  - stages
  - stages2018
  - stratkeys
  - tens
  - keys
- title: Utilities
  desc: >
    Utilities used to manipulate base R objects.
  contents:
  - seqduplicated
  - fill
  - categorize
  - slice
  - streaklog
  - repmatch


authors:
  Adam T. Kocsis:
    href: "https://palaeobiology.nat.fau.de/people/instructors/kocsis/"
  Carl J. Reddin:
    href: "https://www.gzn.nat.fau.eu/palaeontologie/team/former-members/reddin/"
  John Alroy:
    href: "https://researchers.mq.edu.au/en/persons/john-alroy"
  Wolfgang Kiessling:
    href: "https://www.gzn.nat.fau.eu/palaeontologie/team/professors/kiessling/"
  Deutsche Forschungsgemeinschaft:
    href: https://www.dfg.de/en/index.jsp
    html: <img src='https://github.com/gplates/rgplates/blob/devel/pkgdown/assets/dfg.png?raw=true' alt='dfg' width='80' />
  FAU GeoZentrum Nordbayern:
    href: https://www.gzn.nat.fau.eu/
    html: <img src='https://github.com/gplates/rgplates/blob/devel/pkgdown/assets/GeoZentrum.svg?raw=true' alt='geozentrum' width='80' />