_pkgdown.yml

url: https://kuadrat.github.io/growR/
template:
  bootstrap: 5
  bootswatch: darkly
  bslib:
    primary: "#047f36"

navbar:
  structure:
    left: [intro, articles, reference, news]
  components:
    articles:
      text: Vignettes
      menu:
        - text: Calibration
          href: articles/calibration.html
        - text: Calibration - In depth
          href: https://github.com/kuadrat/growR/tree/master/vignettes/figs/calibration_in_depth.pdf
        - text: Parameter Descriptions
          href: articles/parameter_descriptions.html

reference:
- title: Run simulations
  desc: The most important functions to setup `growR` and run simulations.
- contents:
  - setup_directory
  - read_config
  - growR_run_loop
- title: Calibration
  desc: Routines useful to calibrate model to data.
- contents:
  - run_parameter_scan
  - analyze_parameter_scan
  - plot_parameter_scan
  - parameter_scan_example
- title: Analysis
  desc: Utilities for analysis of simulated results.
- contents:
  - plot.ModvegeSite
  - get_bias
  - willmott
  - box_smooth
  - load_measured_data
  - add_lines
- title: Behind-the-scene actors
  desc: Underlying objects that do the real work. They can also be accessed directly in order to produce more fine-grained results.
- subtitle: Run simulations
- contents:
  - ModvegeSite
  - ModvegeEnvironment
  - ModvegeParameters
  - WeatherData
  - ManagementData
  - FunctionalGroup
  - matches("FG_[ABCD]")
- subtitle: Calibration
- contents:
  - PscanPlotter
  - Combinator
- title: Autocut
  desc: Cut decision algorithms
- contents:
  - Autocut
  - PhenologicalAutocut
  - PetersenAutocut
- title: Debug Tools
  desc: Utilities that may be of help if things go wrong.
- contents:
  - browse
  - browse_end
  - logger
- title: Other
- contents:
  - SEA
  - aCO2_inverse
  - append_to_table
  - atmospheric_CO2
  - build_functional_group
  - check_for_package
  - compare.R
  - create_combinations
  - create_example_environment
  - ensure_table_columns
  - ensure_unique_filename
  - fCO2_growth_mod
  - fCO2_transpiration_mod
  - fPAR
  - fT
  - fW
  - get_site_name
  - growR_package_options
  - management_parameters
  - make_yearDOY
  - metric_map
  - parse_year_strings
  - posieux_weather
  - set_growR_verbosity
  - start_of_growing_season
  - start_of_growing_season_mtd
  - weighted_temperature_sum
  - yield_parameters