_pkgdown.yml

url: https://emf-creaf.github.io/medfate/

template:
  bootstrap: 5
  bslib:
    bootswatch: materia
    pkgdown-nav-height: 100px
    primary: "#241F1C"
    
home:
  links:
  - text: Reference book
    href: https://emf-creaf.github.io/medfatebook/index.html


articles:
- title: Introduction
  navbar: Introduction
  desc: Package overview and model inputs
  contents:
  - intro/PackageOverview
  - intro/UnderstandingInputs
  - intro/PreparingInputs
  
- title: Running simulation models
  navbar: Running simulations
  desc: Articles to learn how to conduct simulations
  contents:
  - runmodels/BasicWaterBalance
  - runmodels/AdvancedWaterEnergyBalance
  - runmodels/ForestGrowth
  - runmodels/ForestDynamics

- title: Model analysis and parametrization
  desc: Articles explaining advanced modelling tasks
  contents:
  - modelanalysis/ComputingTime
  - modelanalysis/SensitivityCalibration
  - parametrization/Metamodelling
  - parametrization/GrowthCalibration

- title: Model performance evaluation
  desc: Model benchmark evaluation at stand level
  contents:
  - evaluation/StandLevelEvaluation

- title: Application examples
  desc: Examples of model application
  contents:
  - workedexamples/FontBlanche
  - workedexamples/PlantWaterPools

reference:
- title: Forest definition
  desc:  Forest definition and manipulation functions
- contents:
  - forest
  - emptyforest
  - tree2forest
  - starts_with("forest_")
  - poblet_trees
- title: Species parameters
  desc:  Species parameter data and utility functions.
- contents:
  - starts_with("SpParams")
  - modifyParams
  - trait_family_means
- title: Forest structure
  desc: Summarizing and displaying forest attributes
- contents:
  - starts_with("summary.forest")
  - starts_with("plot.forest")
  - starts_with("shinyplot.forest")
- title: Meteorology
  desc:  Meteorological forcing
- contents:
  - examplemeteo
- title: Soil
  desc:  Soil initialization
- contents:
  - starts_with("defaultSoil")
  - soil
  - starts_with("soil_")
- title: Simulation inputs
  desc:  Simulation control and input objects
- contents:
  - spwbInput
  - forest2aboveground
  - starts_with("defaultControl")
  - starts_with("defaultManagement")
  - starts_with("resetInputs")
- title: Simulation functions
  desc:  Simulation model functions
- contents:
  - spwb
  - spwb_day
  - pwb
  - growth
  - growth_day
  - fordyn
- title: Plots and summaries
  desc:  Summaries, extraction and plots of simulation results
- contents:
  - starts_with("plot.spwb")
  - starts_with("summary.spwb")
  - starts_with("extract")
  - starts_with("shinyplot.spwb")
- title: Post-processing
  desc:  Other post-processing functions
- contents:
  - resistances
  - droughtStress
  - waterUseEfficiency
  - fireHazard
- title: Model analysis
  desc:  Evaluation and optimization
- contents:
  - exampleobs
  - starts_with("evaluation_")
  - starts_with("optimization_")
- title: Wildfire
  desc:  Fuel characteristics and fire behaviour
- contents:
  - starts_with("fire_")
  - starts_with("fuel_")
  - SFM_metric