# A Toolkit for Archetypal Analysis Methods

## Documentation for package ‘yaap’ version 1.0.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

aa_init | Archetypal Analysis Initialization Functions
AIC.archetypes | AIC for archetypes objects
anames | Archetype names
anames.archetypes | Archetype names
anames<- | Archetype names
anames<-.archetypes | Archetype names
archetypes_directional | Directional Archetypal Analysis
archetypes_kernel_pgd | Kernel Archetypal Analysis using Projected Gradient Descent
archetypes_nnls | Archetypal Analysis using Non-Negative Least Squares
archetypes_paa | Probabilistic Archetypal Analysis using Projected Gradient Descent
archetypes_path | Fit an Archetypes Path Across K
archetypes_path.default | Fit an Archetypes Path Across K
archetypes_path.formula | Fit an Archetypes Path Across K
archetypes_pgd | Archetypes Analysis using Projected Gradient Descent
augment.archetypes | Augment data with composition weights from an archetypes model
augment.kernel_archetypes | Augment data with composition weights from an archetypes model
coefficients.archetypes | Coefficients for archetypes objects
compositions | Access archetype coordinates and compositions
compositions.archetypes | Access archetype coordinates and compositions
consistency | Consistency Between Archetypal Analysis Fits
consistency.archetypes | Consistency Between Archetypal Analysis Fits
coordinates | Access archetype coordinates and compositions
coordinates.archetypes | Access archetype coordinates and compositions
fitted.archetypes | Fitted values for archetypes objects
fit_simplex | Fit Data to Convex Hull defined by Archetypes
glance.archetypes | Glance at an archetypes model
glance.kernel_archetypes | Glance at an archetypes model
onehot | One-hot encode a vector
onehot.character | One-hot encode a vector
onehot.default | One-hot encode a vector
onehot.factor | One-hot encode a vector
plot.archetypes | Plot method for archetypes objects
plot_archetypes_compositions | Composition Plot For Archetypes
plot_archetypes_coordinates | Coordinate Plot For Archetypes
plot_archetypes_loss | Loss Plot For Archetypes
plot_archetypes_profiles | Profile Plot For Archetypes
predict.archetypes | Predict compositions or reconstructions for new data from an archetypes model
predict.directional_archetypes | Predict compositions or reconstructions for directional archetypes
predict.kernel_archetypes | Predict method for kernel archetypes
proj_l1 | Project rows of matrix onto the probability simplex
proj_simplex | Project rows of matrix onto the probability simplex
residuals.archetypes | Residuals for archetypes objects
residuals.kernel_archetypes | Residuals for kernel archetypes objects
run_aa | Run Archetypal Analysis
run_aa.default | Run Archetypal Analysis
run_aa.fd | Run Archetypal Analysis
run_aa.formula | Run Archetypal Analysis
screeplot.archetypes_path | Scree Plot for an Archetypes Path
simplex_projection | Project rows of matrix onto the probability simplex
step_archetypes | Archetypal Analysis Preprocessing Step for recipes
tidy.archetypes | Tidy an archetypes model
tidy.kernel_archetypes | Tidy an archetypes model