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Integrative Genomics Viewer (IGV) color scales

Source: R/discrete-igv.R
scale_igv.Rd

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

Nan Xiao | me@nanx.me | 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()
#> `geom_smooth()` using formula = 'y ~ x'

p2 + scale_fill_igv()


p1 + scale_colour_manual(
  values = rep(pal_igv("alternating")(2), times = 3)
)
#> `geom_smooth()` using formula = 'y ~ x'

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