_pkgdown.yml

destination: docs

url: https://merck.github.io/gMCPLite/

template:
  bootstrap: 5
  bslib:
    preset: "bootstrap"
    primary: "#00857c"
    navbar-light-brand-color: "#fff"
    navbar-light-brand-hover-color: "#fff"
    navbar-light-color: "#fff"
    navbar-light-hover-color: "#fff"
    navbar-light-active-color: "#fff"
    dropdown-link-hover-color: "#fff"
    dropdown-link-hover-bg: "#00857c"

footer:
  structure:
    left: [developed_by, built_with, legal]
    right: [blank]
  components:
    legal: "<br>Copyright &copy; 2023 Merck & Co., Inc., Rahway, NJ, USA and its affiliates. All rights reserved."
    blank: "<span></span>"

code:
  width: 74

reference:
  - title: Graphical functions
  - subtitle: Core graphical functions
  - contents:
      - gMCP
      - graphMCP-class
      - gMCPResult-class
      - hGraph
      - matrix2graph
      - graph2matrix
      - placeNodes
      - rejectNode

  - subtitle: Advanced graphical functions
  - contents:
      - gMCP.extended
      - entangledMCP-class
      - gPADInterim-class
      - joinGraphs
      - subgraph

  - subtitle: Example graphs
  - contents:
      - BonferroniHolm
      - BretzEtAl2011
      - BauerEtAl2001
      - BretzEtAl2009a
      - BretzEtAl2009b
      - BretzEtAl2009c
      - HommelEtAl2007
      - HommelEtAl2007Simple
      - parallelGatekeeping
      - improvedParallelGatekeeping
      - fallback
      - fixedSequence
      - simpleSuccessiveI
      - simpleSuccessiveII
      - truncatedHolm
      - generalSuccessive
      - HuqueAloshEtBhore2011
      - HungEtWang2010
      - MaurerEtAl1995
      - cycleGraph
      - improvedFallbackI
      - improvedFallbackII
      - FerberTimeDose2011
      - Ferber2011
      - Entangled1Maurer2012
      - Entangled2Maurer2012
      - WangTing2014

  - title: Testing functions
  - subtitle: Core testing functions
  - contents:
      - graphTest
      - generateWeights
      - generatePvals

  - subtitle: Testing procedures
  - contents:
      - bonferroni.test
      - bonferroni.trimmed.simes.test
      - simes.test
      - simes.on.subsets.test
      - parametric.test
      - weighted.test.functions

  - subtitle: Confidence interval
  - contents:
      - simConfint

  - title: Utility functions
  - subtitle: Graphical-related
  - contents:
      - substituteEps
      - replaceVariables
      - bdiagNA
      - checkCorrelation

  - subtitle: Simulation-related
  - contents:
      - permutations