Package index • ferrn

Main plotting functions

Main diagnostic plotting functions

explore_trace_search(): Plot the count in each iteration

explore_trace_interp(): Plot the trace the search progression

explore_space_start() explore_space_end() explore_space_pca(): Plot the PCA projection of the projection bases space

explore_space_tour() prep_space_tour(): Plot the grand tour animation of the bases space in high dimension

plot_projection() compute_projection(): Plot the projection from the optimisation data collected from projection pursuit

flip_sign() compute_pca(): Helper functions for `explore_space_pca()`

geom_huber() prep_huber() theme_huber(): Create Huber plot with ggplot2

Calculate projection pursuit index metrics

sample_bases() print(<basis_df>) tbl_sum(<basis_df>) calc_smoothness() print(<smoothness_res>) tbl_sum(<smoothness_res>) calc_squintability() print(<squintability_res>) tbl_sum(<squintability_res>) fit_ks() fit_nls(): Function to calculate smoothness and squintability

Get components

Extracting components from existing data object

get_best() get_start() get_interp() get_interp_last() get_anchor() get_search() get_dir_search() get_space_param() get_theo() get_interrupt() get_search_count() get_basis_matrix(): Functions to get components from the data collecting object

Bind additionals

Bind external data to the existing data object

bind_random(): Bind random bases in the projection bases space

bind_random_matrix(): Bind random bases in the projection bases space as a matrix

bind_theoretical(): Bind the theoretical best record

Create ggprotos

ggproto for drawing each component in PCA plot

add_anchor(): A ggproto for drawing anchor points

add_anno(): A ggproto for annotating the symmetry of the starting points

add_dir_search(): A ggproto for drawing directional search points

add_end(): A ggproto for drawing start points

add_interp(): A ggproto for drawing interpolation path

add_interp_last(): A ggproto for drawing finish points

add_interrupt(): A ggproto for annotating the interrupted path

add_search(): A ggproto for drawing search points

add_space(): A ggproto for drawing circle

add_start(): A ggproto for drawing start points

add_theo(): A ggproto for drawing the theoretical basis, if applicable

Color & theme

An australian botanical color palette

botanical_palettes botanical_pal(): A customised colour palette based on Australian botanies

scale_color_continuous_botanical() scale_color_discrete_botanical() scale_fill_continuous_botanical() scale_fill_discrete_botanical(): continuous scale colour function

theme_fern(): A specific theme for trace plots

Data

Simulated example data

sine1000 sine1000_8d pipe1000 pipe1000_8d pipe1000_10d pipe1000_12d boa boa5 boa6: Simulated sine, pipe, and gaussian mixture

holes_1d_geo holes_1d_better holes_1d_jellyfish holes_2d_jellyfish holes_2d_better holes_2d_better_max_tries: Data objects collected during the projection pursuit optimisation

Miscellaneous

Other misc functions

clean_method(): Clean method names

format_label(): Better label formatting to avoid overlapping