colors: Color tools and palettes for epicontacts

In Hackout3/epicontacts: Handling, Visualisation and Analysis of Epidemiological Contacts

Color tools and palettes for epicontacts

Description

These functions are used for defining palettes or colors in the epicontacts package. They include:

Usage

transp(col, alpha = 0.5)

edges_pal(n)

cases_pal(n)

spectral(n)

fac2col(x, pal = cases_pal, NA_col = "lightgrey", legend = FALSE)

Arguments

col	A color vector to which transparency should be added.
alpha	The threshold to be used for transparency: 0 for full transparency, and 1 for full opacity.
n	An integer indicating the number of colors.
x	A character or a factor to be converted to colors.
pal	A color palette.
NA_col	The color to be used for NA values.
legend	A logical indicating if legend info should be added to the output. If TRUE, the output will be a list, with colors in the $color component.

Details

• cases_pal: discrete color palette used for cases (comes from the dibbler package)

• spectral: continuous color palette (comes from the adegenet package)

• transp: makes colors transparent (comes from the adegenet package)

• fac2col: translates a character or a factor to a color using a palette (comes from the adegenet package)

Author(s)

Thibaut Jombart [e-mail]

Examples

barplot(1:5, col = cases_pal(5))
barplot(1:50, col = cases_pal(50))

Hackout3/epicontacts documentation built on June 8, 2025, 10:18 p.m.