_pkgdown.yml

url: https://nlmixrdevelopment.github.io/RxODE
template:
  params:
    bootswatch: flatly
    docsearch:
      api_key: 038b4d83946a52a95a9f8bdafe822dbe
      index_name: rxode
reference:
- title: Creating/Deleting/Loading RxODE compiled objects
  contents:
  - RxODE
  - rxClean
  - rxCompile
  - rxCreateCache
  - rxDelete
  - rxUnloadAll
- title: Creating RxODE event tables/data frames
  contents:
  - et
  - etRbind
  - etRep
  - etSeq
  - etExpand
  - as.et
  - eventTable
  - add.dosing
  - add.sampling
- title: Solving, Simulating and Solving options
  contents:
  - rxSolve
  - rxCbindStudyIndividual
- title: Exploring RxODE and creating models with Shiny
  contents:
  - rxShiny
  - genShinyApp.template
- title: Using RxODE in Packages
  contents:
  - rxUse
  - rxPkg
- title: Specialized Simulation functions
  contents:
  - cvPost
  - rinvchisq
  - rxPp
  - rxbeta
  - rxbinom
  - rxcauchy
  - rxchisq
  - rxexp
  - rxnorm
  - rxpois
  - rxt
  - rxf
  - rxgamma
  - rxgeom
  - rxunif
  - rxweibull
  - rxSimThetaOmega
- title: Optimizing models and/or adding precision
  contents:
  - rxOptExpr
  - rxSumProdModel
  - rxSetProd
  - rxSetSum
- title: Adding/Modifying RxODE C-based functions and derivatives
  contents:
  - rxD
- title: Running unit tests in RxODE
  contents:
  - rxValidate
- title: Special Functions for RxODE
  contents:
    - gammap
    - gammapDer
    - gammapInv
    - gammaq
    - gammaqInv
    - forderForceBase
    - logit
    - lowergamma
    - phi
    - probit
    - rxRmvn
    - rxSetSeed
- title: Parallel processing support commands
  contents:
  -  getRxThreads
- title: ggplot2 support functions
  contents:
  - stat_cens
  - stat_amt
- title: RxODE utility functions
  contents:
  - rxDerived
  - rxInv
  - rxIsCurrent
  - rxLhs
  - rxLock
  - rxNorm
  - rxParams
  - rxProgress
  - rxRandNV
  - rxState
  - rxSymInvChol
  - uppergamma
- title: Internal Functions
  contents:
  - .rxGenFoce
  - .rxWithOptions
  - .rxWithWd
  - .setWarnIdSort
  - invWR1d
  - rLKJ1
  - rxAllowUnload
  - rxAssignPtr
  - rxChain
  - rxDfdy
  - rxEvid
  - rxFun
  - rxGetLin
  - rxGetRxODE
  - rxHtml
  - rxIndLinState
  - rxIndLinStrategy
  - rxRateDur
  - rxReservedKeywords
  - rxS
  - rxSetIni0
  - rxSetProgressBar
  - rxStack
  - rxSupportedFuns
  - rxSuppressMsg
  - rxSyncOptions
  - rxSyntaxFunctions
  - rxTempDir
  - rxTheme
  - rxToSE
  - rxTrans
  - rxWinSetup
  - summary.RxODE
navbar:
  left:
  - text: Articles
    icon: fas fa-book
    menu:
        - text: "--------------------------"
        - text: "Getting started"
        - text: "Introduction"
          href: articles/RxODE-intro.html
        - text: "RxODE mini language syntax"
          href: articles/RxODE-syntax.html
        - text: "RxODE with piping ie %>%"
          href: articles/RxODE-pipeline.html
        - text: "Speeding up RxODE ODE solving"
          href: articles/RxODE-speed.html
        - text: "Adaptive Data Frames with RxODE"
          href: articles/RxODE-data-frame.html
        - text: "Plotting with RxODE"
          href: articles/RxODE-plot.html
        - text: "--------------------------"
        - text: "Advanced Features, Model Types, Technical Details"
        - text: "RxODE model types"
          href: articles/RxODE-model-types.html
        - text: "Chainging RxODE compartment numbers"
          href: articles/RxODE-cmt.html
        - text: "RxODE transit compartment models"
          href: articles/RxODE-transit-compartments.html
        - text: "Using Shiny with RxODE"
          href: articles/RxODE-shiny.html
        - text: "RxODE covariates"
          href: articles/RxODE-covariates.html
        - text: "Stiff Systems and Jacobian specification"
          href: articles/RxODE-stiff.html
        - text: "Adding compiled RxODE models to your package"
          href: articles/RxODE-rxUse.html
  - text: "Dosing/Events"
    icon: fas fa-stethoscope
    menu:
        - text: "nlmixr/RxODE dataset overview"
          href: articles/RxODE-datasets.html
        - text: "Supported Event Types"
          href: articles/RxODE-event-types.html
        - text: "Easy RxODE Event Tables"
          href: articles/RxODE-event-table.html
        - text: "Classic RxODE events explained"
          href: articles/RxODE-events-classic.html
  - text: "Simulations"
    icon: fas fa-desktop
    menu:
        - text: "Single Subject ODE solving"
          href: articles/rxode-single-subject.html
        - text: "Multiple Subject RxODE Simulation"
          href: articles/RxODE-sim-var.html
        - text: "Using Prior Data for ODE solving"
          href: articles/RxODE-prior-data.html
  - text: "Help"
    icon: fas fa-life-ring
    menu:
       - text: Running the interactive tutorials
         href: articles/RxODE-tutorials.html
       - text: 2015 CPT tutorial
         href: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4728294/pdf/PSP4-5-03.pdf
       - text: "--------------------------"
       - text: Adding Circadian Rythmn (time-varying covariates)
         href: articles/RxODE-covariates.html
       - text: Weight Based Dosing
         href: articles/RxODE-wt.html
       - text: Simulating Multiple levels of nesting (iov, between study etc)
         href: articles/RxODE-nesting.html
       - text: "--------------------------"
       - text: Changes/News
         href: news/index.html
  - text: "Functions"
    icon: fa-file-code-o
    href: https://nlmixrdevelopment.github.io/RxODE/reference/index.html
  right:
  - icon: fas fa-archive
    menu:
      - text: RxODE User Guide
        href: https://nlmixrdevelopment.github.io/RxODE-manual/
      - text: nlmixr
        href: https://nlmixrdevelopment.github.io/nlmixr/
  - icon: fa-github
    href: https://github.com/nlmixrdevelopment/RxODE
  - icon: fa-download
    href: https://github.com/nlmixrdevelopment/RxODE/releases