_pkgdown.yml

reference:
  - title: "Main functions"
    desc: Higher level, more user-friendly functions that call the other using few parameters
    contents:
      - compute_archi
      - make_scene
  - title: "Extract field data"
    desc: >
      Helpers to extract the field data from the excel forms
    contents:
      - extract_sheets
      - extract_form_area
      - extract_form_dev
      - extract_section_area
  - title: "Model fitting functions (nls, lme, nlme)"
    desc: >
      Functions that fits particular models to the input data
    contents:
      - starts_with("mod_")
  - title: "Import / Initialization"
    desc: "Functions for initializing, reading or writing data."
    contents:
      - import_data
      - init_list
  - title: "Plots"
    desc: "Automatic plot generation"
    contents:
      - starts_with("plot_")
  - title: "Leaflet scale functions"
    desc: "VPalm functions at leaflet scale, used to find the parameters"
    contents:
      - leaflet_length
      - leaflet_max_width
      - find_angle
      - leaflet_axial_angle
      - leaflet_radial_angle
      - leaflet_length
      - leaflet_shape_nls
      - shape_beta
      - leaflet_position
      - position_on_leaflet
      - add_pos_0_on_Leaflet
  - title: "Leaf scale functions"
    desc: "VPalm functions at leaf scale, used to find the parameters"
    contents:
      - curvature
      - leaf_curvature
      - curvature_error
      - optim_Leaf_Curv_Infl
      - deviation_A
      - section_height
  - title: "Stem functions"
    desc: "VPalm functions for the stem, used to find the parameters"
    contents:
      - stem_height
  - title: "Extract"
    desc: "Extract the VPalm parameters from the models outputs (the main is extract_progeny)"
    contents:
      - extract_progeny
      - extract_trees
      - extract_params
  - title: "Format"
    desc: "Format the parameters lists as a VPalm input"
    contents:
      - starts_with("format_")
  - title: "Write"
    desc: "Writting the pre-formatted parameter lists in a VPalm input file"
    contents:
      - starts_with("write_")
  - title: "Design of experiment"
    desc: "Computes a planting pattern for the OPS file"
    contents:
      - design_plot
  - title: "Make"
    desc: "Make VPalm input files"
    contents:
      - starts_with("make_")
  - title: "Helpers"
    desc: "Different helpers (Al-Kashi, curvature, distances...)"
    contents:
      - AlKashi
      - distance_2D
      - object_lenght
      - object_tans
      - sigmoid
      - pmean
      - coef_sample
      - pull_lme
  - title: "Tests"
    desc: "Helper functions for testing the input data format or missing values"
    contents:
      - starts_with("test_")