Description
Color Palettes for Mycobacterium Tuberculosis Data Visualization.
Description
Colour palettes and helper functions for visualising Mycobacterium tuberculosis genomic and epidemiological data with 'ggplot2' and 'ggtree'. The package provides predefined palettes, scale functions, tree/cladogram helpers, and convenient preview tools to ensure consistent branding in pathogen-omics visualisations. The palettes were developed as part of the 'mycolorsTB' project <https://github.com/PathoGenOmics-Lab/mycolorsTB>.
README.md
mycolorsTB
R Color package for Mycobacterium tuberculosis complex
Installation
You can install the released version of mycolorsTB from GitHub with:
install.packages("devtools")
devtools::install_github("PathoGenOmics-Lab/mycolorsTB")
Vector of colors
show(mycolorsTB::mycolors) #vector with lineage names
show(mycolorsTB::classicTB) #vector witout lineage names
Example - ggplot()
library(ggplot2)
library(mycolorsTB)
# Example data
data <- data.frame(
x = 1:14,
y = rnorm(14),
group = rep(c(paste0("A", 1:4), paste0("L", 1:10)), each = 1)
)
# Fill: Plot with mycolors lineages names
ggplot(data, aes(x = x, y = y, fill = group)) +
geom_bar(stat = "identity") +
scale_fill_mycolors() + # scale_fill_manual(values = mycolors)
theme_minimal()
HEX codes
- A1:
#d1ae00 - A2:
#8ef5c8 - A3:
#73c2ff - A4:
#ff9cdb - L1:
#ff3091 - L2:
#001aff - L3:
#8a0bd2 - L4:
#ff0000 - L5:
#995200 - L6:
#1eb040 - L7:
#fbff00 - L8:
#ff9d00 - L9:
#37ff30 - L10:
#8fbda1
Newick tree
(L8,((L1,(L7,(L4,(L2,L3)))),(L5,((A2,(A3,A4)),(A1,(L10,(L6,L9)))))));