The purpose of the pals
package is twofold: (1) provide a comprehensive collection of color palettes and colormaps (2) provide tools for evaluating these collections. This report gives some suggestions/recommendations for color and then gives an example of each evaluation tool.
The appearance of color depends on (1) the display device (screen, paper, photocopy), (2) the type of graphic (regions/lines), and (3) the person (age, gender, colorblindness)–it is difficult to give definitive recommendations for the best palettes and colormaps. Nonetheless, here are some we like (among many!).
Diverging: coolwarm
/warmcool
avoid Mach banding in the middle.
Sequential: ocean.haline
, parula
(default in Matlab).
Rainbow: cubicl
, kovesi.rainbow
.
Cyclical: ocean.phase
.
Categorical: brewer.paired
, stepped
require(pals)
## Loading required package: pals
pal.bands(coolwarm, parula, ocean.haline, cubicl, kovesi.rainbow, ocean.phase, brewer.paired(12), stepped,
main="Colormap suggestions")
## Only 20 colors are available with 'stepped'
pals
packageShow palettes and colormaps as colored bands
What to look for:
A good discrete palette has distinct colors.
A good continuous colormap does not show boundaries between colors. The palette is poor, showing bright lines at yellow, cyan, pink.
labs=c('alphabet','alphabet2', 'glasbey','kelly','pal36', 'stepped', 'tol', 'watlington')
op=par(mar=c(0,5,3,1))
pal.bands(alphabet(), alphabet2(), glasbey(), kelly(),
pal36(), stepped(), tol(), watlington(), labels=labs, show.names=FALSE)
par(op)
pal.bands(coolwarm, viridis, parula, n=200)
Show the amount of red, green, blue, and gray in colors of a palette. The gray line corresponds to luminosity.
What to look for:
pal.channels(parula, main="parula")
Show a palette with heirarchical clustering
The palette colors are converted to LUV coordinates before clustering.
What to look for:
Colors that are visually similar tend to be clustered together.
Are the leaves at substantially different heights?
pal.cluster(alphabet2(), main="alphabet2")
Show a colormap with a Campbell-Robson Contrast Sensitivity Chart.
In a contrast sensitivity figure as drawn by this function, the spatial frequency increases from left to right and the contrast decreases from bottom to top. The bars in the figure appear taller in the middle of the image than at the edges, creating an upside-down “U” shape, which is the “contrast sensitivity function”. Your perception of this curve depends on the viewing distance.
What to look for:
Are the vertical bands visible across the full vertical axis?
Do the vertical bands blur together?
pal.csf(parula, main="parula")
Many colormap functions are defined with more colors than needed. This function compresses a colormap function down to a small-ish vector of colors that can be passed into colorRampPalette
to re-create the original palette with a just-noticeable-difference.
How effective is pal.compress
? Compressing all 50 kovesi.*
colormaps reduces memory from 352000 to 46000 bytes, a savings of 87%.
In the figure below, the top band is the coolwarm
colormap function with 255 colors. The cool2
vector has 13 colors (shown at the bottom) which can be passed into the colorRampPalette
function and expanded to 255 colors shown in the middle band. The maximum squared LUV distance between the individual colors in the two bands is 2.08, which is smaller than the theoretical perceptual difference.
# smooth palettes usually easy to compress
p1 <- coolwarm(255)
cool2 <- pal.compress(coolwarm)
p2 <- colorRampPalette(cool2)(255)
pal.bands(p1, p2, cool2,
labels=c('original','compressed', 'basis'), main="coolwarm")
pal.maxdist(p1,p2) # 2.08
## [1] 2.07927
The palette is converted to RGB or LUV coordinates and plotted in a three-dimensional scatterplot. The LUV space is probably better, but it is easier to tweak colors by hand in RGB space.
What to look for:
A good palette has colors that are spread somewhat uniformly in 3D.
#pal.cube(cubehelix)
#pal.cube(pal36())
A random heatmap is generated (with 5% missing values) and a key is added to the heatmap by appending a blank column and then a column with the palette colors.
What to look for:
Can the value of each cell be correctly interpreted using the key on the right side?
Can missing values be identified?
op <- par(mfrow=c(1,2), mar=c(1,1,2,2))
pal.heatmap(alphabet, n=26, main="alphabet")
pal.heatmap(alphabet2, n=26, main="alphabet2")
par(op)
Display a palette on a choropleth map similar to the ColorBrewer website.
What to look for:
Are regions distinct from each other? Are county outlines visible?
Are outliers identifiable within each region?
Are colors identifiable in the complex area (lower left) part of the map.
pal.map(brewer.paired, n=12, main="brewer.paired")
A single palette/colormap is shown as colored bands (1) without any modifications (2) in black-and-white as if photocopied (3) as seen by deutan color-blind (4) as seen by protan color-blind (5) as seen by tritan color-blind.
What to look for:
Are colors still unique when viewed in less-than full color?
Is a sequential colormap still sequential?
pal.safe(parula, main="parula")
Show a colormap with a scatterplot
What to look for:
pal.scatter(pal36, n=36, main="alphabet")
The test image shows a sine wave superimposed on a ramp of the palette. The amplitude of the sine wave is dampened/modulated from full at the top of the image to 0 at the bottom.
What to look for:
Is the sine wave equally visible horizontally across the entire image?
At the bottom, is the ramp smooth, or are there features like vertical bands?
pal.sineramp(parula, main="parula")
In the example below, the jet
palette fails the tests.
op <- par(mfrow=c(3,1), mar=c(1,1,2,1))
pal.sineramp(jet, main="jet")
pal.sineramp(tol.rainbow, main="tol.rainbow")
pal.sineramp(kovesi.rainbow, main="kovesi.rainbow")
par(op)
The pal.test
function combines several other functions into a single test image.
The examples below show the superiority of the parula
colormap as compared to the viridis
colormap.
What to look for:
pal.test(parula)
pal.test(viridis) # dark colors are poor
Some palettes with dark colors at one end of the palette hide the shape of the volcano in the dark colors.
What to look for:
Can you locate the exact position of the highest point on the volcano?
Are the upper-right and lower-right corners the same elevation?
Do any Mach bands circle the peak?
pal.volcano(parula)
Show a Z-order curve, coloring cells with a colormap. The difference in color between squares side-by-side is 1/48 of the full range. The difference in color between one square atop another is 1/96 the full range.
What to look for:
pal.zcurve(parula, main="parula")
To use any colormap with the ggplot2
package, use the scale_fill_gradientn
function as shown in the following example.
require(ggplot2)
## Loading required package: ggplot2
## Warning: package 'ggplot2' was built under R version 3.3.2
require(pals)
require(reshape2)
## Loading required package: reshape2
## Warning: package 'reshape2' was built under R version 3.3.2
ggplot(melt(volcano), aes(x=Var1, y=Var2, fill=value)) +
geom_tile() +
scale_fill_gradientn(colours=coolwarm(100), guide = "colourbar")
The following images show bands for all the colormaps and palettes in the pals
package, grouped in
# Discrete
pal.bands(alphabet, alphabet2, cols25, glasbey, kelly, pal36, stepped, tol, watlington,
main="Discrete", show.names=FALSE)
## Only 26 colors are available with 'alphabet'
## Only 26 colors are available with 'alphabet2'
## Only 25 colors are available with 'cols25'.
## Only 32 colors are available with 'glasbey'.
## Only 22 colors are available with 'kelly'.
## Only 36 colors are available with 'pal36'.
## Only 20 colors are available with 'stepped'
## Only 12 colors are available with 'tol'
## Only 16 colors are available with 'watlington'.
# Misc
pal.bands(coolwarm,cubehelix,gnuplot,jet,parula,tol.rainbow)
# Niccoli
pal.bands(cubicyf,cubicl,isol,linearl,linearlhot,
main="Niccoli")
# Qualtitative
pal.bands(brewer.accent(8), brewer.dark2(8), brewer.paired(12), brewer.pastel1(9),
brewer.pastel2(8), brewer.set1(9), brewer.set2(8), brewer.set3(10),
labels=c("brewer.accent", "brewer.dark2", "brewer.paired", "brewer.pastel1",
"brewer.pastel2", "brewer.set1", "brewer.set2", "brewer.set3"),
main="Brewer qualitative")
# Sequential
pal.bands(brewer.blues, brewer.bugn, brewer.bupu, brewer.gnbu, brewer.greens,
brewer.greys, brewer.oranges, brewer.orrd, brewer.pubu, brewer.pubugn,
brewer.purd, brewer.purples, brewer.rdpu, brewer.reds, brewer.ylgn,
brewer.ylgnbu, brewer.ylorbr, brewer.ylorrd,
main="Brewer sequential")
# Diverging
pal.bands(brewer.brbg, brewer.piyg, brewer.prgn, brewer.puor, brewer.rdbu,
brewer.rdgy, brewer.rdylbu, brewer.rdylgn, brewer.spectral,
main="Brewer diverging")
# Ocean
pal.bands(ocean.thermal, ocean.haline, ocean.solar, ocean.ice, ocean.gray,
ocean.oxy, ocean.deep, ocean.dense, ocean.algae, ocean.matter,
ocean.turbid, ocean.speed, ocean.amp, ocean.tempo, ocean.phase,
ocean.balance, ocean.delta, ocean.curl, main="Ocean")
# Matplotlib
pal.bands(magma, inferno, plasma, viridis, main="Matplotlib")
# Kovesi
op = par(mar=c(1,10,2,1))
pal.bands(kovesi.cyclic_grey_15_85_c0, kovesi.cyclic_grey_15_85_c0_s25,
kovesi.cyclic_mrybm_35_75_c68, kovesi.cyclic_mrybm_35_75_c68_s25,
kovesi.cyclic_mygbm_30_95_c78, kovesi.cyclic_mygbm_30_95_c78_s25,
kovesi.cyclic_wrwbw_40_90_c42, kovesi.cyclic_wrwbw_40_90_c42_s25,
kovesi.diverging_isoluminant_cjm_75_c23, kovesi.diverging_isoluminant_cjm_75_c24,
kovesi.diverging_isoluminant_cjo_70_c25, kovesi.diverging_linear_bjr_30_55_c53,
kovesi.diverging_linear_bjy_30_90_c45, kovesi.diverging_rainbow_bgymr_45_85_c67,
kovesi.diverging_bkr_55_10_c35, kovesi.diverging_bky_60_10_c30,
kovesi.diverging_bwr_40_95_c42, kovesi.diverging_bwr_55_98_c37,
kovesi.diverging_cwm_80_100_c22, kovesi.diverging_gkr_60_10_c40,
kovesi.diverging_gwr_55_95_c38, kovesi.diverging_gwv_55_95_c39,
kovesi.isoluminant_cgo_70_c39, kovesi.isoluminant_cgo_80_c38,
kovesi.isoluminant_cm_70_c39, kovesi.rainbow_bgyr_35_85_c72, kovesi.rainbow_bgyr_35_85_c73,
kovesi.rainbow_bgyrm_35_85_c69, kovesi.rainbow_bgyrm_35_85_c71,
main="Kovesi")
pal.bands(kovesi.linear_bgy_10_95_c74,
kovesi.linear_bgyw_15_100_c67, kovesi.linear_bgyw_15_100_c68,
kovesi.linear_blue_5_95_c73, kovesi.linear_blue_95_50_c20,
kovesi.linear_bmw_5_95_c86, kovesi.linear_bmw_5_95_c89,
kovesi.linear_bmy_10_95_c71, kovesi.linear_bmy_10_95_c78,
kovesi.linear_gow_60_85_c27, kovesi.linear_gow_65_90_c35,
kovesi.linear_green_5_95_c69, kovesi.linear_grey_0_100_c0,
kovesi.linear_grey_10_95_c0, kovesi.linear_kry_5_95_c72,
kovesi.linear_kry_5_98_c75, kovesi.linear_kryw_5_100_c64,
kovesi.linear_kryw_5_100_c67, kovesi.linear_ternary_blue_0_44_c57,
kovesi.linear_ternary_green_0_46_c42, kovesi.linear_ternary_red_0_50_c52,
main="Kovesi linear"
)
par(op)