scale_igv: Integrative Genomics Viewer (IGV) color scales

In ggsci: Scientific Journal and Sci-Fi Themed Color Palettes for 'ggplot2'

Integrative Genomics Viewer (IGV) color scales

Description

See pal_igv() for details.

Usage

scale_color_igv(palette = c("default", "alternating"), alpha = 1, ...)

scale_colour_igv(palette = c("default", "alternating"), alpha = 1, ...)

scale_fill_igv(palette = c("default", "alternating"), alpha = 1, ...)

Arguments

palette	Palette type. There are two available options: "default" (51-color palette). "alternating" (2-color palette).
alpha	Transparency level, a real number in (0, 1]. See alpha in grDevices::rgb() for details.
...	Additional parameters for ggplot2::discrete_scale().

Author(s)

Nan Xiao | [e-mail] | https://nanx.me

Examples

library("ggplot2")
data("diamonds")

p1 <- ggplot(
  subset(diamonds, carat >= 2.2),
  aes(x = table, y = price, colour = cut)
) +
  geom_point(alpha = 0.7) +
  geom_smooth(method = "loess", alpha = 0.1, size = 1, span = 1) +
  theme_bw()

p2 <- ggplot(
  subset(diamonds, carat > 2.2 & depth > 55 & depth < 70),
  aes(x = depth, fill = cut)
) +
  geom_histogram(colour = "black", binwidth = 1, position = "dodge") +
  theme_bw()

p1 + scale_color_igv()
p2 + scale_fill_igv()

p1 + scale_colour_manual(
  values = rep(pal_igv("alternating")(2), times = 3)
)
p2 + scale_fill_manual(
  values = rep(pal_igv("alternating")(2), times = 3)
)

ggsci documentation built on June 22, 2024, 10:29 a.m.