Files in citoverse/cito
Building and Training Neural Networks

.Rbuildignore

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.gitignore

CRAN-SUBMISSION

DESCRIPTION

NAMESPACE

NEWS.md R/cito.R R/cnn.R R/continue_training.R R/data_simulation.R R/dnn.R R/mmn.R R/model.R R/optimizer.R R/reformulate_glmmTMB.R R/structures.R R/training.R R/tuner.R R/utils.R R/xAI.R R/zzz.R README.Rmd README.md

README_files/figure-gfm/unnamed-chunk-7-1.png

_pkgdown.yml

cito.Rproj

cran-comments.md

docs/404.html

docs/E-CNN_and_MMN.html

docs/LICENSE.html

docs/articles/A-Introduction_to_cito.html

docs/articles/A-Introduction_to_cito_files/figure-html/activation-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/activation-2.png

docs/articles/A-Introduction_to_cito_files/figure-html/alpha-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/continue_training-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/continue_training2-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/dropout-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/dropout-2.png

docs/articles/A-Introduction_to_cito_files/figure-html/early_stopping-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/lr_scheduler-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/optim-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/plotnn-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/simp_models-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/unnamed-chunk-10-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/unnamed-chunk-11-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/unnamed-chunk-11-2.png

docs/articles/A-Introduction_to_cito_files/figure-html/unnamed-chunk-2-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/unnamed-chunk-3-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/unnamed-chunk-9-1.png

docs/articles/A-Introduction_to_cito_files/figure-html/validation-1.png

docs/articles/A/A-early_stopping-1.png

docs/articles/A/A-lr_scheduler-1.png

docs/articles/A/A-optim-1.png

docs/articles/A/A-plotnn-1.png

docs/articles/A/A-unnamed-chunk-10-1.png

docs/articles/A/A-unnamed-chunk-11-1.png

docs/articles/A/A-unnamed-chunk-11-2.png

docs/articles/A/A-unnamed-chunk-14-1.png

docs/articles/A/A-unnamed-chunk-15-1.png

docs/articles/A/A-unnamed-chunk-15-2.png

docs/articles/A/A-unnamed-chunk-16-1.png

docs/articles/A/A-unnamed-chunk-17-1.png

docs/articles/A/A-unnamed-chunk-17-2.png

docs/articles/A/A-unnamed-chunk-2-1.png

docs/articles/A/A-unnamed-chunk-3-1.png

docs/articles/A/A-unnamed-chunk-9-1.png

docs/articles/B-Training_neural_networks.html

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-10-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-11-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-2-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-3-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-4-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-5-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-6-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-7-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-8-1.png

docs/articles/B-Training_neural_networks_files/figure-html/unnamed-chunk-9-1.png

docs/articles/B/B-unnamed-chunk-10-1.png

docs/articles/B/B-unnamed-chunk-11-1.png

docs/articles/B/B-unnamed-chunk-2-1.png

docs/articles/B/B-unnamed-chunk-3-1.png

docs/articles/B/B-unnamed-chunk-4-1.png

docs/articles/B/B-unnamed-chunk-5-1.png

docs/articles/B/B-unnamed-chunk-6-1.png

docs/articles/B/B-unnamed-chunk-7-1.png

docs/articles/B/B-unnamed-chunk-8-1.png

docs/articles/B/B-unnamed-chunk-9-1.png

docs/articles/C-Example_Species_distribution_modeling.html

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-11-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-12-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-13-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-15-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-15-2.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-15-3.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-15-4.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-18-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-19-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-24-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-4-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-5-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-6-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-7-1.png

docs/articles/C-Example_Species_distribution_modeling_files/figure-html/unnamed-chunk-8-1.png

docs/articles/C/C-unnamed-chunk-11-1.png

docs/articles/C/C-unnamed-chunk-12-1.png

docs/articles/C/C-unnamed-chunk-13-1.png

docs/articles/C/C-unnamed-chunk-15-1.png

docs/articles/C/C-unnamed-chunk-15-2.png

docs/articles/C/C-unnamed-chunk-15-3.png

docs/articles/C/C-unnamed-chunk-15-4.png

docs/articles/C/C-unnamed-chunk-18-1.png

docs/articles/C/C-unnamed-chunk-19-1.png

docs/articles/C/C-unnamed-chunk-24-1.png

docs/articles/C/C-unnamed-chunk-25-1.png

docs/articles/C/C-unnamed-chunk-26-1.png

docs/articles/C/C-unnamed-chunk-4-1.png

docs/articles/C/C-unnamed-chunk-5-1.png

docs/articles/C/C-unnamed-chunk-6-1.png

docs/articles/C/C-unnamed-chunk-7-1.png

docs/articles/C/C-unnamed-chunk-8-1.png

docs/articles/D-Advanced_custom_loss_functions.html

docs/articles/D-Advanced_custom_loss_functions_files/figure-html/unnamed-chunk-2-1.png

docs/articles/D-Advanced_custom_loss_functions_files/figure-html/unnamed-chunk-4-1.png

docs/articles/D-Advanced_custom_loss_functions_files/figure-html/unnamed-chunk-5-1.png

docs/articles/D-Advanced_custom_loss_functions_files/figure-html/unnamed-chunk-6-1.png

docs/articles/D/D-unnamed-chunk-2-1.png

docs/articles/D/D-unnamed-chunk-4-1.png

docs/articles/D/D-unnamed-chunk-5-1.png

docs/articles/D/D-unnamed-chunk-6-1.png

docs/articles/E-CNN_and_MMN.html

docs/articles/index.html

docs/authors.html

docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js

docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js.map

docs/deps/bootstrap-5.2.2/bootstrap.min.css

docs/deps/bootstrap-5.3.1/bootstrap.bundle.min.js

docs/deps/bootstrap-5.3.1/bootstrap.bundle.min.js.map

docs/deps/bootstrap-5.3.1/bootstrap.min.css

docs/deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js

docs/deps/clipboard.js-2.0.11/clipboard.min.js

docs/deps/data-deps.txt

docs/deps/font-awesome-6.5.2/css/all.css

docs/deps/font-awesome-6.5.2/css/all.min.css

docs/deps/font-awesome-6.5.2/css/v4-shims.css

docs/deps/font-awesome-6.5.2/css/v4-shims.min.css

docs/deps/font-awesome-6.5.2/webfonts/fa-brands-400.ttf

docs/deps/font-awesome-6.5.2/webfonts/fa-brands-400.woff2

docs/deps/font-awesome-6.5.2/webfonts/fa-regular-400.ttf

docs/deps/font-awesome-6.5.2/webfonts/fa-regular-400.woff2

docs/deps/font-awesome-6.5.2/webfonts/fa-solid-900.ttf

docs/deps/font-awesome-6.5.2/webfonts/fa-solid-900.woff2

docs/deps/font-awesome-6.5.2/webfonts/fa-v4compatibility.ttf

docs/deps/font-awesome-6.5.2/webfonts/fa-v4compatibility.woff2

docs/deps/headroom-0.11.0/headroom.min.js

docs/deps/headroom-0.11.0/jQuery.headroom.min.js

docs/deps/jquery-3.6.0/jquery-3.6.0.js

docs/deps/jquery-3.6.0/jquery-3.6.0.min.js

docs/deps/jquery-3.6.0/jquery-3.6.0.min.map

docs/deps/search-1.0.0/autocomplete.jquery.min.js

docs/deps/search-1.0.0/fuse.min.js

docs/deps/search-1.0.0/mark.min.js

docs/index.html

docs/katex-auto.js

docs/lightswitch.js

docs/link.svg

docs/news/index.html

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/ALE-1.png

docs/reference/ALE-2.png

docs/reference/ALE.html

docs/reference/PDP-1.png

docs/reference/PDP-2.png

docs/reference/PDP.html

docs/reference/Rplot001.png

docs/reference/Rplot002.png

docs/reference/Rplot003.png

docs/reference/Rplot004.png

docs/reference/Rplot005.png

docs/reference/Rplot006.png

docs/reference/Rplot007.png

docs/reference/analyze_training-1.png

docs/reference/analyze_training-2.png

docs/reference/analyze_training.html

docs/reference/avgPool.html

docs/reference/cito-1.png

docs/reference/cito-10.png

docs/reference/cito-2.png

docs/reference/cito-3.png

docs/reference/cito-4.png

docs/reference/cito-5.png

docs/reference/cito-6.png

docs/reference/cito-7.png

docs/reference/cito-8.png

docs/reference/cito-9.png

docs/reference/cito.html

docs/reference/cnn.html

docs/reference/coef.citocnn.html

docs/reference/coef.citodnn-1.png

docs/reference/coef.citodnn.html

docs/reference/conditionalEffects-1.png

docs/reference/conditionalEffects.html

docs/reference/config_lr_scheduler-1.png

docs/reference/config_lr_scheduler.html

docs/reference/config_optimizer-1.png

docs/reference/config_optimizer.html

docs/reference/config_tuning.html

docs/reference/continue_training-1.png

docs/reference/continue_training-2.png

docs/reference/continue_training.html

docs/reference/conv.html

docs/reference/create_architecture.html

docs/reference/dnn-1.png

docs/reference/dnn-10.png

docs/reference/dnn-2.png

docs/reference/dnn-3.png

docs/reference/dnn-4.png

docs/reference/dnn-5.png

docs/reference/dnn-6.png

docs/reference/dnn-7.png

docs/reference/dnn-8.png

docs/reference/dnn-9.png

docs/reference/dnn.html

docs/reference/e.html

docs/reference/figures/README-pressure-1.png

docs/reference/figures/README-unnamed-chunk-7-1.png

docs/reference/figures/learning_rates.jpg

docs/reference/figures/learningrates.jpg

docs/reference/figures/overfitting.jpg

docs/reference/findReTrmClasses.html

docs/reference/index.html

docs/reference/linear.html

docs/reference/maxPool.html

docs/reference/mmn.html

docs/reference/multinomial_log_prob.html

docs/reference/plot.citoarchitecture-1.png

docs/reference/plot.citoarchitecture.html

docs/reference/plot.citocnn.html

docs/reference/plot.citodnn-1.png

docs/reference/plot.citodnn-2.png

docs/reference/plot.citodnn.html

docs/reference/plot.citodnnBootstrap-1.png

docs/reference/plot.citodnnBootstrap-2.png

docs/reference/plot.citodnnBootstrap.html

docs/reference/predict.citocnn.html

docs/reference/predict.citodnn-1.png

docs/reference/predict.citodnn-2.png

docs/reference/predict.citodnn.html

docs/reference/predict.citodnnBootstrap-1.png

docs/reference/predict.citodnnBootstrap-2.png

docs/reference/predict.citodnnBootstrap.html

docs/reference/predict.citommn.html

docs/reference/print.citoarchitecture.html

docs/reference/print.citocnn.html

docs/reference/print.citodnn-1.png

docs/reference/print.citodnn.html

docs/reference/print.citodnnBootstrap-1.png

docs/reference/print.citodnnBootstrap.html

docs/reference/print.citommn.html

docs/reference/print.conditionalEffects.html

docs/reference/print.conditionalEffectsBootstrap.html

docs/reference/print.summary.citodnn.html

docs/reference/print.summary.citodnnBootstrap.html

docs/reference/residuals.citodnn.html

docs/reference/simulate_shapes.html

docs/reference/sumTerms.html

docs/reference/summary.citocnn.html

docs/reference/summary.citodnn.html

docs/reference/summary.citodnnBootstrap.html

docs/reference/summary.citommn.html

docs/reference/transfer.html

docs/reference/tune.html

docs/search.json

docs/sitemap.xml

inst/CITATION

inst/WORDLIST

man/figures/README-unnamed-chunk-7-1.png

man/figures/learningrates.jpg

man/figures/overfitting.jpg

man/findReTrmClasses.Rd man/linear.Rd man/maxPool.Rd man/mmn.Rd man/multinomial_log_prob.Rd man/plot.citoarchitecture.Rd man/plot.citocnn.Rd man/plot.citodnn.Rd man/predict.citocnn.Rd man/predict.citodnn.Rd man/predict.citommn.Rd man/print.citoarchitecture.Rd man/print.citocnn.Rd man/print.citodnn.Rd man/print.citommn.Rd man/print.conditionalEffects.Rd man/print.summary.citodnn.Rd man/residuals.citodnn.Rd man/simulate_shapes.Rd man/sumTerms.Rd man/summary.citocnn.Rd man/summary.citodnn.Rd man/summary.citommn.Rd man/transfer.Rd man/tune.Rd tests/spelling.R tests/testthat.R tests/testthat/test-cnn.R tests/testthat/test-dnn.R tests/testthat/test-examples.R tests/testthat/test-xAI.R tests/testthat/utils.R vignettes/A-Introduction_to_cito.Rmd

vignettes/A-Introduction_to_cito.Rmd.orig

vignettes/A/A-activation-1.png

vignettes/A/A-activation-2.png

vignettes/A/A-alpha-1.png

vignettes/A/A-continue_training-1.png

vignettes/A/A-continue_training2-1.png

vignettes/A/A-dropout-1.png

vignettes/A/A-dropout-2.png

vignettes/A/A-early_stopping-1.png

vignettes/A/A-lr_scheduler-1.png

vignettes/A/A-optim-1.png

vignettes/A/A-plotnn-1.png

vignettes/A/A-simp_models-1.png

vignettes/A/A-unnamed-chunk-10-1.png

vignettes/A/A-unnamed-chunk-11-1.png

vignettes/A/A-unnamed-chunk-11-2.png

vignettes/A/A-unnamed-chunk-14-1.png

vignettes/A/A-unnamed-chunk-15-1.png

vignettes/A/A-unnamed-chunk-15-2.png

vignettes/A/A-unnamed-chunk-16-1.png

vignettes/A/A-unnamed-chunk-17-1.png

vignettes/A/A-unnamed-chunk-17-2.png

vignettes/A/A-unnamed-chunk-2-1.png

vignettes/A/A-unnamed-chunk-3-1.png

vignettes/A/A-unnamed-chunk-9-1.png

vignettes/A/A-validation-1.png

vignettes/B-Training_neural_networks.Rmd

vignettes/B-Training_neural_networks.Rmd.orig

vignettes/B/B-unnamed-chunk-10-1.png

vignettes/B/B-unnamed-chunk-11-1.png

vignettes/B/B-unnamed-chunk-2-1.png

vignettes/B/B-unnamed-chunk-3-1.png

vignettes/B/B-unnamed-chunk-4-1.png

vignettes/B/B-unnamed-chunk-5-1.png

vignettes/B/B-unnamed-chunk-6-1.png

vignettes/B/B-unnamed-chunk-7-1.png

vignettes/B/B-unnamed-chunk-8-1.png

vignettes/B/B-unnamed-chunk-9-1.png

vignettes/C-Example_Species_distribution_modeling.Rmd

vignettes/C-Example_Species_distribution_modeling.Rmd.orig

vignettes/C/C-unnamed-chunk-11-1.png

vignettes/C/C-unnamed-chunk-12-1.png

vignettes/C/C-unnamed-chunk-13-1.png

vignettes/C/C-unnamed-chunk-15-1.png

vignettes/C/C-unnamed-chunk-15-2.png

vignettes/C/C-unnamed-chunk-15-3.png

vignettes/C/C-unnamed-chunk-15-4.png

vignettes/C/C-unnamed-chunk-18-1.png

vignettes/C/C-unnamed-chunk-19-1.png

vignettes/C/C-unnamed-chunk-24-1.png

vignettes/C/C-unnamed-chunk-25-1.png

vignettes/C/C-unnamed-chunk-26-1.png

vignettes/C/C-unnamed-chunk-4-1.png

vignettes/C/C-unnamed-chunk-5-1.png

vignettes/C/C-unnamed-chunk-6-1.png

vignettes/C/C-unnamed-chunk-7-1.png

vignettes/C/C-unnamed-chunk-8-1.png

vignettes/D-Advanced_custom_loss_functions.Rmd

vignettes/D-Advanced_custom_loss_functions.Rmd.orig

vignettes/D/D-unnamed-chunk-2-1.png

vignettes/D/D-unnamed-chunk-4-1.png

vignettes/D/D-unnamed-chunk-5-1.png

vignettes/D/D-unnamed-chunk-6-1.png

vignettes/E-CNN_and_MMN.Rmd

vignettes/E-CNN_and_MMN.Rmd.orig

vignettes/build.R

vignettes_build/.html

vignettes_build/A-Introduction_to_cito.html

vignettes_build/A-Introduction_to_cito.html.asis

vignettes_build/B-Training_neural_networks.html

vignettes_build/B-Training_neural_networks.html.asis

vignettes_build/C-Example_Species_distribution_modeling.html

vignettes_build/C-Example_Species_distribution_modeling.html.asis

vignettes_build/D-Advanced_custom_loss_functions.html

vignettes_build/D-Advanced_custom_loss_functions.html.asis

citoverse/cito documentation built on June 10, 2025, 5:38 p.m.

rdrr.io home R language documentation Run R code online

CRAN packages Bioconductor packages R-Forge packages GitHub packages

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

citoverse/cito
Building and Training Neural Networks

Files in citoverse/cito
Building and Training Neural Networks

R Package Documentation

Browse R Packages

We want your feedback!

citoverse/cito Building and Training Neural Networks

Files in citoverse/cito Building and Training Neural Networks

R Package Documentation

Browse R Packages

We want your feedback!

citoverse/cito
Building and Training Neural Networks

Files in citoverse/cito
Building and Training Neural Networks