_pkgdown.yml

url: ~
template:
  bootstrap: 5
  bslib:
    bg: "#fcfaf2"
    fg: "#14059e"
    primary: "#0542a3"
    base_font: {google: "Roboto"}
  includes:
    in_header: |
      <script type="text/javascript">(function(c,l,a,r,i,t,y){c[a]=c[a]||function(){(c[a].q=c[a].q||[]).push(arguments)}; t=l.createElement(r);t.async=1;t.src="https://www.clarity.ms/tag/"+i;   y=l.getElementsByTagName(r)[0];y.parentNode.insertBefore(t,y);})(window, document, "clarity", "script", "m9rbql4acz");</script>

reference:
- title: "Data preparation"
  contents: 
  - create_bins
  - create.bins
  - checkdata
  - flatfile
- title: "Fitting"
  contents:
  - ds
- title: "Diagnostics"
  contents:
  - checkdata
  - p_dist_table
  - gof_ds
  - ds.gof
- title: "Model selection"
  contents:
  - AIC.dsmodel
  - logLik.dsmodel
  - QAIC
  - chi2_select
  - summarize_ds_models
- title: "Printing and plotting"
  contents:
  - plot.dsmodel
  - add_df_covar_line
  - print.dht_result
  - print.dsmodel
  - summary.dsmodel
  - print.summary.dsmodel
- title: "Bootstrap variance estimation"
  contents:
  - starts_with("bootdht")
  - make_activity_fn
  - summary.dht_bootstrap
- title: "Advanced"
  contents:
  - dht2
- title: "Data sets"
  contents:
  - starts_with("amakihi")
  - starts_with("capercaillie")
  - starts_with("ClusterExercise")
  - starts_with("CueCountingExample")
  - starts_with("ducknest")
  - starts_with("DuikerCameraTraps")
  - starts_with("ETP_Dolphin")
  - starts_with("golftees")
  - starts_with("LTExercise")
  - starts_with("minke")
  - starts_with("PTExercise")
  - starts_with("Savannah")
  - starts_with("sikadeer")
  - starts_with("Stratify_example")
  - starts_with("Systematic")
  - starts_with("unimak")
  - starts_with("wren")
- title: "Miscellaneous"
  contents:
  - convert_units
  - units_table
  - dummy_ddf
  - predict.dsmodel
  - predict.fake_ddf
  - unflatten
  - Distance-package

navbar:
  bg: primary
  structure:
    right: [twitter, github]
  components:
    twitter:
      icon: fa-twitter
      href: https://twitter.com/distancesamp
      aria-label: Twitter
  left:
    - text: Function reference
      href: reference/index.html
    - text: Articles
      menu:
        - text: Line transects
          href: articles/lines-distill.html
        - text: Covariates in detection
          href: articles/covariates-distill.html
        - text: Species as a covariate
          href: articles/species-covariate-distill.html
        - text: "------"
        - text: Only for the website
        - text: Point transects
          href: articles/web-only/points/pointtransects-distill.html
        - text: Size bias remedy
          href: articles/web-only/groupsize/Remedy-size-bias-for-dolphin-surveys.html
        - text: Stratification
          href: articles/web-only/strata/strata-distill.html
        - text: Detecting difference in density between strata
          href: articles/web-only/differences/differences.html
        - text: Variance estimation with bootstrap
          href: articles/web-only/variance/variance-distill.html
        - text: Cue count surveys
          href: articles/web-only/cues/cuecounts-distill.html
        - text: Indirect surveys
          href: articles/web-only/multipliers/multipliers-distill.html
        - text: Take care when subsetting multispecies data sets
          href: articles/web-only/multispecies/multispecies-multioccasion-analysis.html
        - text: Camera trap distance sampling
          href: articles/web-only/CTDS/camera-distill.html
        - text: Alternative optimiser
          href: articles/web-only/alt-optimise/mcds-dot-exe.html
    - text: News
      href: news/index.html

footer:
  structure:
    right: donate
    left: clarity
  components:
    donate: "If you wish to donate to development and maintenance, please <a href='mailto:distance@st-andrews.ac.uk'>email us</a>."
    clarity:  "We improve our site and software support by using Microsoft Clarity to see <br>
      how you use our website. By using our site, you agree that we and Microsoft <br>
      can collect and use this data. Clarity is GDPR compliant."