Files in MathieuGenu/geffaeR
Generic Function for Abundance Estimation with R
.Rbuildignore
.github/.gitignore
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
LICENSE.md
NAMESPACE
R/abundance_plot_dsm.R
R/ajout_obs.R
R/change_varName.R
R/clip_inside.R
R/create_geffaeR_project.R
R/cv_dsm.R
R/data.R
R/data_prep_effort.R
R/data_prep_obs.R
R/env_graph.R
R/fit_all_dsm.R
R/fit_variomodel.R
R/get_density.R
R/get_mcmc_summary.R
R/import_package.R
R/make_cfact_2.R
R/plot_detection.R
R/pred_map_dsm.R
R/pred_splines.R
R/predict_abund.r
R/predict_dsm.R
R/predict_kriging.R
R/prep_predata.R
R/prepare_soap.R
R/quick_map_krig.R
R/semi_var_plot.R
R/stan_cds.R
R/use_geffaeR_function.R
R/variogram_intraTransect.R
R/verif_effort_obs.R
_pkgdown.yml
data/DSM_pack_MOLMOL.rda
data/Europe.rda
data/NEA.rda
data/NEA_isobath100.rda
data/NEA_isobath200.rda
data/NEA_simplified_FR.rda
data/cds.rda
data/cds_krig.rda
data/effort_example.rda
data/lbrt93_proj.rda
data/observation_example.rda
data/shape_example.rda
docs/404.html
docs/LICENSE.html
docs/apple-touch-icon-120x120.png
docs/apple-touch-icon-152x152.png
docs/apple-touch-icon-180x180.png
docs/apple-touch-icon-60x60.png
docs/apple-touch-icon-76x76.png
docs/apple-touch-icon.png
docs/articles/DSM_functions.png
docs/articles/II_DSM_example_with_MOLA_MOLA.html
docs/articles/II_DSM_example_with_MOLA_MOLA_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/II_DSM_example_with_MOLA_MOLA_files/figure-html/SAMM calendar-1.png
docs/articles/II_DSM_example_with_MOLA_MOLA_files/figure-html/global view-1.png
docs/articles/II_DSM_example_with_MOLA_MOLA_files/figure-html/map observation effort-1.png
docs/articles/II_DSM_example_with_MOLA_MOLA_files/figure-html/map observation effort-2.png
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docs/articles/II_DSM_example_with_MOLA_MOLA_files/header-attrs-2.4/header-attrs.js
docs/articles/II_DSM_example_with_MOLA_MOLA_files/kePrint-0.0.1/kePrint.js
docs/articles/I_Preparation_of_data_CDS_and_kriging.html
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/crosstalk-1.1.0.1/css/crosstalk.css
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/crosstalk-1.1.0.1/js/crosstalk.js
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/crosstalk-1.1.0.1/js/crosstalk.js.map
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/crosstalk-1.1.0.1/js/crosstalk.min.js
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docs/articles/I_Preparation_of_data_CDS_and_kriging_files/datatables-binding-0.14/datatables.js
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/datatables-css-0.0.0/datatables-crosstalk.css
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/dt-core-1.10.20/css/jquery.dataTables.extra.css
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/dt-core-1.10.20/css/jquery.dataTables.min.css
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/dt-core-1.10.20/js/jquery.dataTables.min.js
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/figure-html/TURTRU plot_detection graph-1.png
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/figure-html/plot_detection LARMEL-1.png
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/header-attrs-2.4/header-attrs.js
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/htmlwidgets-1.5.1/htmlwidgets.js
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/jquery-1.12.4/LICENSE.txt
docs/articles/I_Preparation_of_data_CDS_and_kriging_files/jquery-1.12.4/jquery.min.js
docs/articles/Mola_mola.jpg
docs/articles/Package_example.html
docs/articles/Package_example_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/Package_example_files/crosstalk-1.1.0.1/css/crosstalk.css
docs/articles/Package_example_files/crosstalk-1.1.0.1/js/crosstalk.js
docs/articles/Package_example_files/crosstalk-1.1.0.1/js/crosstalk.js.map
docs/articles/Package_example_files/crosstalk-1.1.0.1/js/crosstalk.min.js
docs/articles/Package_example_files/crosstalk-1.1.0.1/js/crosstalk.min.js.map
docs/articles/Package_example_files/datatables-binding-0.10/datatables.js
docs/articles/Package_example_files/datatables-binding-0.14/datatables.js
docs/articles/Package_example_files/datatables-css-0.0.0/datatables-crosstalk.css
docs/articles/Package_example_files/dt-core-1.10.19/css/jquery.dataTables.extra.css
docs/articles/Package_example_files/dt-core-1.10.19/css/jquery.dataTables.min.css
docs/articles/Package_example_files/dt-core-1.10.19/js/jquery.dataTables.min.js
docs/articles/Package_example_files/dt-core-1.10.20/css/jquery.dataTables.extra.css
docs/articles/Package_example_files/dt-core-1.10.20/css/jquery.dataTables.min.css
docs/articles/Package_example_files/dt-core-1.10.20/js/jquery.dataTables.min.js
docs/articles/Package_example_files/elevate-section-attrs-2.0/elevate-section-attrs.js
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docs/articles/Package_example_files/header-attrs-2.4/header-attrs.js
docs/articles/Package_example_files/htmlwidgets-1.5.1/htmlwidgets.js
docs/articles/Package_example_files/jquery-1.12.4/LICENSE.txt
docs/articles/Package_example_files/jquery-1.12.4/jquery.min.js
docs/articles/effort_schema_prepare_data.png
docs/articles/index.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/favicon-16x16.png
docs/favicon-32x32.png
docs/favicon.ico
docs/index.html
docs/link.svg
docs/logo.png
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/readme.html
docs/reference/DSM_pack_MOLMOL.html
docs/reference/Europe.html
docs/reference/NEA.html
docs/reference/NEA_isobath100.html
docs/reference/NEA_isobath200.html
docs/reference/NEA_simplified_FR.html
docs/reference/ajout_obs.html
docs/reference/cds.html
docs/reference/change_effort_varName.html
docs/reference/change_obs_varName.html
docs/reference/effort_example.html
docs/reference/figures/DSM_functions.png
docs/reference/figures/Mola_mola.jpg
docs/reference/figures/before_after_EN_total.png
docs/reference/figures/effort_schema_prepare_data.png
docs/reference/figures/hex_sticker_geffaeR.png
docs/reference/figures/logo.png
docs/reference/fit_all_dsm.html
docs/reference/fit_variomodel.html
docs/reference/get_mcmc_summary.html
docs/reference/index.html
docs/reference/lbrt93_proj.html
docs/reference/observation_example.html
docs/reference/plot_detection.html
docs/reference/pred_map_dsm.html
docs/reference/pred_splines.html
docs/reference/predict_all.html
docs/reference/predict_kriging.html
docs/reference/prep_predata.html
docs/reference/prepare_data_effort.html
docs/reference/prepare_data_obs.html
docs/reference/prepare_soap.html
docs/reference/quick_map_krig.html
docs/reference/shape_example.html
docs/reference/stan_cds.html
docs/reference/variogram_intraTransect.html
docs/reference/verif_effort_obs.html
geffaeR.Rproj
index.Rmd
index.md
inst/templates/00_setup.R
inst/templates/01_adjust_plot_detection.R
inst/templates/01_change_colnames.R
inst/templates/02_get_detection_info_and_graph.R
inst/templates/02_prepare_effort_and_obs.R
inst/templates/03_get_density_graph.R
inst/templates/function_summarize_summary_ds.R
logo.png
man/DSM_pack_MOLMOL.Rd
man/Europe.Rd
man/NEA.Rd
man/NEA_isobath100.Rd
man/NEA_isobath200.Rd
man/NEA_simplified_FR.Rd
man/ajout_obs.Rd
man/cds.Rd
man/change_effort_varName.Rd
man/change_obs_varName.Rd
man/create_cds_project.Rd
man/effort_example.Rd
man/figures/DSM_functions.png
man/figures/Mola_mola.jpg
man/figures/before_after_EN_total.png
man/figures/effort_schema_prepare_data.png
man/figures/logo.png
man/fit_all_dsm.Rd
man/fit_variomodel.Rd
man/get_mcmc_summary.Rd
man/lbrt93_proj.Rd
man/observation_example.Rd
man/plot_detection.Rd
man/pred_map_dsm.Rd
man/pred_splines.Rd
man/predict_abund.Rd
man/predict_all.Rd
man/predict_kriging.Rd
man/prep_predata.Rd
man/prepare_data_effort.Rd
man/prepare_data_obs.Rd
man/prepare_soap.Rd
man/quick_map_krig.Rd
man/shape_example.Rd
man/stan_cds.Rd
man/variogram_intraTransect.Rd
man/verif_effort_obs.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
readme.md
readme.rmd
script_creation_package.R
tests/testthat.R
tests/testthat/test-change_effort_varName.R
tests/testthat/test-change_obs_varName.R
vignettes/.gitignore
vignettes/DSM_functions.png
vignettes/II_DSM_example_with_MOLA_MOLA.Rmd
vignettes/I_Preparation_of_data_CDS_and_kriging.Rmd
vignettes/Mola_mola.jpg
vignettes/before_after_EN_total.png
vignettes/effort_schema_prepare_data.png
vignettes/logo.png
