Package index • growR

Run simulations

The most important functions to setup growR and run simulations.

setup_directory(): Initialize growR directory structure

read_config(): Read simulation run configurations from file

growR_run_loop(): Run growR simulations

Calibration

Routines useful to calibrate model to data.

run_parameter_scan(): Parameter Scan

analyze_parameter_scan(): Analyze results of a parameter scan

plot_parameter_scan(): Plot Parameter Scan Results

parameter_scan_example: Example results of a parameter scan

Analysis

Utilities for analysis of simulated results.

plot(<ModvegeSite>): Plot ModVege simulation result overview

get_bias() root_mean_squared() mean_absolute_error(): Metric Functions

willmott(): Willmott Index

box_smooth(): Endpoint smoother

load_measured_data() load_data_for_sites() load_matching_data(): Load experimental data

add_lines(): Add data to a ggplot

Behind-the-scene actors

Underlying objects that do the real work. They can also be accessed directly in order to produce more fine-grained results.

Run simulations

ModvegeSite: ModvegeSite

ModvegeEnvironment: growR environment data

ModvegeParameters: Parameter Data Object

WeatherData: Weather Data Object

ManagementData: Management Data Class

FunctionalGroup: Representation of a grassland plant population

FG_A: Functional group A

FG_B: Functional group B

FG_C: Functional group C

FG_D: Functional group D

Calibration

PscanPlotter: Plot Parameter Scan Results

Combinator: Combinator

Autocut

Cut decision algorithms

Autocut: Autocut

PhenologicalAutocut: Autocut based on phenology

PetersenAutocut: Petersen autocut algorithm

Debug Tools

Utilities that may be of help if things go wrong.

browse() browse_end(): Debugging utilities

logger(): Primitive logger for debugging.

Other

SEA(): Seasonal effect on growth

aCO2_inverse(): Concentration representative year

append_to_table(): Write *data* to supplied file in append mode without generating a warning message.

atmospheric_CO2(): Atmospheric CO2 concentration

build_functional_group(): Build the effective functional group as a weighted linear combination.

check_for_package(): Check if *package* is available

compare.R: Compare simulation results

create_combinations(): Create Valid Combinations

create_example_environment(): Provide an example ModvegeEnvironment

ensure_table_columns(): Check if supplied table contains all *required* variables.

ensure_unique_filename(): Replace given filename by a version that contains an incremental number in order to prevent overwriting existing files.

fCO2_growth_mod(): CO2 growth modifier

fCO2_transpiration_mod(): CO2 transpiration modifier

fPAR(): Radiation limitation

fT(): Temperature limitation

fW(): Water stress

get_site_name(): Extract the name of a site from a filename

growR_package_options: Default options introduced by package growR

management_parameters: Management practices for Swiss grasslands

make_yearDOY(): Create unique DOY + year identifier

metric_map: List of Performance Metrics

parse_year_strings(): Parse and generate lists of years.

posieux_weather: Example Weather Data

set_growR_verbosity(): Set verbosity of growR output.

start_of_growing_season(): Determine start of growing season

start_of_growing_season_mtd(): Multicriterial Thermal Definition

weighted_temperature_sum(): Create a weighted temperature sum

yield_parameters: Parameters for expected yields in Switzerland