Package: BioCro 3.1.3

Justin M. McGrath

BioCro: Modular Crop Growth Simulations

A cross-platform representation of models as sets of equations that facilitates modularity in model building and allows users to harness modern techniques for numerical integration and data visualization. Documentation is provided by several vignettes included in this package; also see Lochocki et al. (2022) <doi:10.1093/insilicoplants/diac003>.

Authors:Justin M. McGrath [cre, aut], Edward B. Lochocki [aut], Scott Rohde [aut], Deepak Jaiswal [aut], Megan L. Matthews [aut], Fernando E. Miguez [aut], Stephen P. Long [aut], Dan Wang [ctb], David LeBauer [ctb], BioCro authors [cph], Boost Organization [cph]

BioCro_3.1.3.tar.gz
BioCro_3.1.3.zip(r-4.5)BioCro_3.1.3.zip(r-4.4)BioCro_3.1.3.zip(r-4.3)
BioCro_3.1.3.tgz(r-4.4-x86_64)BioCro_3.1.3.tgz(r-4.4-arm64)BioCro_3.1.3.tgz(r-4.3-x86_64)BioCro_3.1.3.tgz(r-4.3-arm64)
BioCro_3.1.3.tar.gz(r-4.5-noble)BioCro_3.1.3.tar.gz(r-4.4-noble)
BioCro_3.1.3.tgz(r-4.4-emscripten)BioCro_3.1.3.tgz(r-4.3-emscripten)
BioCro.pdf |BioCro.html✨
BioCro/json (API)
NEWS

# Install 'BioCro' in R:
install.packages('BioCro', repos = c('https://biocro.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/biocro/biocro/issues

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:

On CRAN:

22 exports 41 stars 3.39 score 0 dependencies 87 scripts 319 downloads

Last updated 5 months agofrom:31a414542d. Checks:OK: 1 NOTE: 8. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 13 2024
R-4.5-win-x86_64NOTESep 13 2024
R-4.5-linux-x86_64NOTESep 13 2024
R-4.4-win-x86_64NOTESep 13 2024
R-4.4-mac-x86_64NOTESep 13 2024
R-4.4-mac-aarch64NOTESep 13 2024
R-4.3-win-x86_64NOTESep 13 2024
R-4.3-mac-x86_64NOTESep 13 2024
R-4.3-mac-aarch64NOTESep 13 2024

Exports:add_csv_rowadd_time_to_weather_datacasecases_from_csvevaluate_moduleget_all_modulesget_all_ode_solversget_all_quantitiesget_growing_season_climateinitialize_csvmodule_infomodule_pastemodule_response_curvepartial_evaluate_modulepartial_run_biocroquantity_list_from_namesrun_biocrosystem_derivativestest_moduletest_module_libraryupdate_csv_casesvalidate_dynamical_system_inputs

Dependencies:

BioCro

Rendered fromBioCro.Rmdusingknitr::rmarkdownon Sep 13 2024.

Last update: 2024-04-30
Started: 2024-04-30

Readme and manuals

Help Manual

Help pageTopics
Add a time component to inputadd_time_to_weather_data
Miscanthus dry biomass data.annualDB annualDB2
Global annual mean atmopspheric CO2 levelscatm_data
Champaign, IL weather data for Soybean-BioCrocmi_soybean_weather_data soybean_weather
Champaign, IL weather datacmi_weather_data weather
Crop model definitionscrop_model_definitions
Default ODE solver settingsdefault_ode_solvers
Validating dynamical system inputsdynamical_system validate_dynamical_system_inputs
Get lists of modules, quantities, and solversget_all get_all_modules get_all_ode_solvers get_all_quantities
Truncate weather data to one growing seasonget_growing_season_climate
Miscanthus model definitionmiscanthus_x_giganteus
Define and modify BioCro module test case filesadd_csv_row initialize_csv module_case_files update_csv_cases
Create instances of modulesmodule_creators
Prepend library name to module namesmodule_paste
The BioCro module testing systemmodule_testing
BioCro module functionsevaluate_module modules module_info module_response_curve quantity_list_from_names
Miscanthus assimilation field dataobsBea
Complete Miscanthus assimilation field dataobsBeaC
Miscanthus assimilation dataobsNaid
Convenience Functions for Partial Applicationpartial_application partial_evaluate_module partial_run_biocro
Simulate Crop Growth with BioCrorun_biocro
Soil propertiessoil_parameters
Soybean-BioCro model definitionsoybean
Soybean-BioCro circadian clock model definitionsoybean_clock
Calculate Derivatives for Differential Quantitiessystem_derivatives
Run BioCro module test casescase cases_from_csv test_module
Run module test cases for an entire BioCro module librarytest_module_library
Willow model definitionwillow