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Make a palette of colors for plotting CANAPE results

Source: R/cpr_make_pal.R
cpr_make_pal.Rd

Palettes can also be loaded by name directly (see "Other colors" below).

Usage

cpr_make_pal(name, type)

Arguments

name

Character vector of length 1; name of palette to select. Must be one of 'mishler2014', 'canaper1', 'canaper2', 'canaper3', or 'canaper4'

type

Character vector of length 1; type of palette to select. Must be one of 'endem' (endemism) or 'signif' (p-rank significance)

Value

Named character vector; color hex codes

Details

Palettes with the name 'mishler2014' correspond to colors used in Mishler et al. 2014. This color scheme has been widely used to show CANAPE results, but some colors may not be distinguishable to people with color vision deficiency (CVD).

Palettes with the name 'canaper1' or 'canaper2' are based on the Okabe-Ito palette (endemism; Okabe & Ito 2002) or RColorBrewer (significance) and should be CVD-friendly.

Names of colors correspond to either endemism type or p-rank output by cpr_classify_endem() or cpr_classify_signif(), respectively. Not all names are all available for both types.

References

Mishler, B., Knerr, N., González-Orozco, C. et al. (2014) Phylogenetic measures of biodiversity and neo- and paleo-endemism in Australian Acacia. Nat Commun, 5: 4473. doi:10.1038/ncomms5473

Okabe, M., & Ito, K. (2002) Color Universal Design (CUD) - How to make figures and presentations that are friendly to Colorblind people. J*FLY Data Depository for Drosophila Researchers. https://jfly.uni-koeln.de/color/

See also

Other colors: cpr_endem_cols_2, cpr_endem_cols_3, cpr_endem_cols_4, cpr_endem_cols, cpr_signif_cols_2, cpr_signif_cols, mishler_endem_cols, mishler_signif_cols

Examples

cpr_make_pal("mishler2014", "endem")
#>             neo           paleo not significant           mixed           super 
#>       "#E73323"       "#5577F7"       "#FAFAD6"       "#BF84F8"       "#8E25F6" 
cpr_make_pal("canaper1", "endem")
#>           paleo             neo not significant           mixed           super 
#>       "#0072B2"       "#D55E00"       "#FFFFCC"       "#009E73"       "#F0E442" 
scales::show_col(cpr_make_pal("mishler2014", "endem"))