Files in Allgeier-Lab/arrR
Individual-Based Simulation Model of Artifical Reefs in R
.Rbuildignore
.github/.gitignore
.github/workflows/R-CMD-check.yaml
.github/workflows/Render-README.yaml
.github/workflows/Test-coverage.yaml
.github/workflows/deploy-pkgdown.yaml
.gitignore
CODE_OF_CONDUCT.md
CONTRIBUTING.md
DESCRIPTION
LICENSE.md
NAMESPACE
NEWS.md
R/RcppExports.R
R/arrR-package.R
R/calc_size.R
R/check_parameters.R
R/data.R
R/filter_mdlrn.R
R/get_density.R
R/get_limits.R
R/get_production.R
R/get_req_nutrients.R
R/get_seafloor_dim.R
R/get_starting_values.R
R/onUnload.R
R/plot.mdl_rn.R
R/plot_allocation.R
R/plot_production.R
R/print.mdl_rn.R
R/read_parameters.R
R/run_simulation.R
R/setup_fishpop.R
R/setup_seafloor.R
R/summarize_mdlrn.R
R/sysdata.rda
README.Rmd
README.md
_pkgdown.yml
arrR.Rproj
codecov.yml
data-raw/parameters_starting_values.R
data-raw/result_readme.R
data/default_parameters.rda
data/default_starting.rda
inst/CITATION
inst/include/arrR.h
inst/include/arrR_RcppExports.h
man/arrR.Rd
man/calc_size.Rd
man/check_parameters.Rd
man/default_parameters.Rd
man/default_starting.Rd
man/figures/README-plot_result-1.png
man/figures/logo.png
man/filter_mdlrn.Rd
man/get_density.Rd
man/get_limits.Rd
man/get_production.Rd
man/get_req_nutrients.Rd
man/get_seafloor_dim.Rd
man/get_starting_values.Rd
man/plot.mdl_rn.Rd
man/plot_allocation.Rd
man/plot_production.Rd
man/print.mdl_rn.Rd
man/rcpp_cell_from_xy.Rd
man/rcpp_closest_reef.Rd
man/rcpp_fishpop_growth.Rd
man/rcpp_get_bearing.Rd
man/rcpp_get_max_dist.Rd
man/rcpp_modify_degree.Rd
man/rcpp_mortality.Rd
man/rcpp_move_behav.Rd
man/rcpp_move_rand.Rd
man/rcpp_move_wrap.Rd
man/rcpp_quantile.Rd
man/rcpp_reincarnate.Rd
man/rcpp_respiration.Rd
man/rcpp_rlognorm.Rd
man/rcpp_rnorm.Rd
man/rcpp_runif.Rd
man/rcpp_shuffle.Rd
man/rcpp_simulate.Rd
man/rcpp_translate_torus.Rd
man/rcpp_update_coords.Rd
man/rcpp_which.Rd
man/read_parameters.Rd
man/run_simulation.Rd
man/setup_fishpop.Rd
man/setup_seafloor.Rd
man/summarize_mdlrn.Rd
pkgdown/favicon/apple-touch-icon-120x120.png
pkgdown/favicon/apple-touch-icon-152x152.png
pkgdown/favicon/apple-touch-icon-180x180.png
pkgdown/favicon/apple-touch-icon-60x60.png
pkgdown/favicon/apple-touch-icon-76x76.png
pkgdown/favicon/apple-touch-icon.png
pkgdown/favicon/favicon-16x16.png
pkgdown/favicon/favicon-32x32.png
pkgdown/favicon/favicon.ico
src/.gitignore
src/RcppExports.cpp
src/rcpp_cell_from_xy.cpp
src/rcpp_cell_from_xy.h
src/rcpp_closest_reef.cpp
src/rcpp_closest_reef.h
src/rcpp_fishpop_growth.cpp
src/rcpp_fishpop_growth.h
src/rcpp_get_bearing.cpp
src/rcpp_get_bearing.h
src/rcpp_get_max_dist.cpp
src/rcpp_get_max_dist.h
src/rcpp_modify_degree.cpp
src/rcpp_modify_degree.h
src/rcpp_mortality.cpp
src/rcpp_mortality.h
src/rcpp_move_behav.cpp
src/rcpp_move_behav.h
src/rcpp_move_rand.cpp
src/rcpp_move_rand.h
src/rcpp_move_wrap.cpp
src/rcpp_move_wrap.h
src/rcpp_quantile.cpp
src/rcpp_quantile.h
src/rcpp_reincarnate.cpp
src/rcpp_reincarnate.h
src/rcpp_respiration.cpp
src/rcpp_respiration.h
src/rcpp_rlognorm.cpp
src/rcpp_rlognorm.h
src/rcpp_rnorm.cpp
src/rcpp_rnorm.h
src/rcpp_runif.cpp
src/rcpp_runif.h
src/rcpp_shuffle.cpp
src/rcpp_shuffle.h
src/rcpp_simulate.cpp
src/rcpp_simulate.h
src/rcpp_translate_torus.cpp
src/rcpp_translate_torus.h
src/rcpp_update_coords.cpp
src/rcpp_update_coords.h
src/rcpp_which.cpp
src/rcpp_which.h
src/rcpp_write_to_file.cpp
src/rcpp_write_to_file.h
tests/testthat.R
tests/testthat/setup-test.R
tests/testthat/test-check_parameters.R
tests/testthat/test-filter_mdlrn.R
tests/testthat/test-get_density.R
tests/testthat/test-get_limits.R
tests/testthat/test-get_req_nutrients.R
tests/testthat/test-plot.R
tests/testthat/test-plot_allocation.R
tests/testthat/test-print.R
tests/testthat/test-run_simulation.R
tests/testthat/test-setup_fishpop.R
tests/testthat/test-setup_seafloor.R
vignettes/.gitignore
vignettes/articles/concept.png
vignettes/articles/general-background.Rmd
vignettes/articles/movement-behaviors.Rmd
vignettes/articles/publication-record.Rmd
vignettes/articles/starting-values-parameters.Rmd
vignettes/get-started.Rmd
