[f3902c]: / src / scpanel / palettes.py

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"""Color palettes in addition to matplotlib's palettes."""
from typing import Mapping, Sequence
from matplotlib import cm, colors
tab10 = [
"#1f77b4",
"#ff7f0e",
"#2ca02c",
"#d62728",
"#9467bd",
"#8c564b",
"#e377c2",
"#7f7f7f",
"#bcbd22",
"#17becf",
]
# Colorblindness adjusted vega_10
# See https://github.com/scverse/scanpy/issues/387
vega_10 = list(map(colors.to_hex, cm.tab10.colors))
vega_10_scanpy = vega_10.copy()
vega_10_scanpy[2] = "#279e68" # green
vega_10_scanpy[4] = "#aa40fc" # purple
vega_10_scanpy[8] = "#b5bd61" # kakhi
# default matplotlib 2.0 palette
# see 'category20' on https://github.com/vega/vega/wiki/Scales#scale-range-literals
vega_20 = list(map(colors.to_hex, cm.tab20.colors))
# reorderd, some removed, some added
vega_20_scanpy = [
# dark without grey:
*vega_20[0:14:2],
*vega_20[16::2],
# light without grey:
*vega_20[1:15:2],
*vega_20[17::2],
# manual additions:
"#ad494a",
"#8c6d31",
]
vega_20_scanpy[2] = vega_10_scanpy[2]
vega_20_scanpy[4] = vega_10_scanpy[4]
vega_20_scanpy[7] = vega_10_scanpy[8] # kakhi shifted by missing grey
## ['#1f77b4','#aec7e8','#ff7f0e','#ffbb78','#2ca02c','#98df8a',
## '#d62728','#ff9896','#9467bd','#c5b0d5','#8c564b','#c49c94',
## '#e377c2','#f7b6d2','#7f7f7f','#c7c7c7','#bcbd22','#dbdb8d','#17becf','#9edae5']
# TODO: also replace pale colors if necessary
default_20 = vega_20_scanpy
# https://graphicdesign.stackexchange.com/questions/3682/where-can-i-find-a-large-palette-set-of-contrasting-colors-for-coloring-many-d
# update 1
# orig reference https://research.wu.ac.at/en/publications/escaping-rgbland-selecting-colors-for-statistical-graphics-26
zeileis_28 = [
"#023fa5",
"#7d87b9",
"#bec1d4",
"#d6bcc0",
"#bb7784",
"#8e063b",
"#4a6fe3",
"#8595e1",
"#b5bbe3",
"#e6afb9",
"#e07b91",
"#d33f6a",
"#11c638",
"#8dd593",
"#c6dec7",
"#ead3c6",
"#f0b98d",
"#ef9708",
"#0fcfc0",
"#9cded6",
"#d5eae7",
"#f3e1eb",
"#f6c4e1",
"#f79cd4",
# these last ones were added:
"#7f7f7f",
"#c7c7c7",
"#1CE6FF",
"#336600",
]
default_28 = zeileis_28
# from https://godsnotwheregodsnot.blogspot.com/2012/09/color-distribution-methodology.html
godsnot_102 = [
# "#000000", # remove the black, as often, we have black colored annotation
"#FFFF00",
"#1CE6FF",
"#FF34FF",
"#FF4A46",
"#008941",
"#006FA6",
"#A30059",
"#FFDBE5",
"#7A4900",
"#0000A6",
"#63FFAC",
"#B79762",
"#004D43",
"#8FB0FF",
"#997D87",
"#5A0007",
"#809693",
"#6A3A4C",
"#1B4400",
"#4FC601",
"#3B5DFF",
"#4A3B53",
"#FF2F80",
"#61615A",
"#BA0900",
"#6B7900",
"#00C2A0",
"#FFAA92",
"#FF90C9",
"#B903AA",
"#D16100",
"#DDEFFF",
"#000035",
"#7B4F4B",
"#A1C299",
"#300018",
"#0AA6D8",
"#013349",
"#00846F",
"#372101",
"#FFB500",
"#C2FFED",
"#A079BF",
"#CC0744",
"#C0B9B2",
"#C2FF99",
"#001E09",
"#00489C",
"#6F0062",
"#0CBD66",
"#EEC3FF",
"#456D75",
"#B77B68",
"#7A87A1",
"#788D66",
"#885578",
"#FAD09F",
"#FF8A9A",
"#D157A0",
"#BEC459",
"#456648",
"#0086ED",
"#886F4C",
"#34362D",
"#B4A8BD",
"#00A6AA",
"#452C2C",
"#636375",
"#A3C8C9",
"#FF913F",
"#938A81",
"#575329",
"#00FECF",
"#B05B6F",
"#8CD0FF",
"#3B9700",
"#04F757",
"#C8A1A1",
"#1E6E00",
"#7900D7",
"#A77500",
"#6367A9",
"#A05837",
"#6B002C",
"#772600",
"#D790FF",
"#9B9700",
"#549E79",
"#FFF69F",
"#201625",
"#72418F",
"#BC23FF",
"#99ADC0",
"#3A2465",
"#922329",
"#5B4534",
"#FDE8DC",
"#404E55",
"#0089A3",
"#CB7E98",
"#A4E804",
"#324E72",
]
default_102 = godsnot_102
def _plot_color_cycle(clists: Mapping[str, Sequence[str]]):
import matplotlib.pyplot as plt
import numpy as np
from matplotlib.colors import BoundaryNorm, ListedColormap
fig, axes = plt.subplots(nrows=len(clists)) # type: plt.Figure, plt.Axes
fig.subplots_adjust(top=0.95, bottom=0.01, left=0.3, right=0.99)
axes[0].set_title("Color Maps/Cycles", fontsize=14)
for ax, (name, clist) in zip(axes, clists.items()):
n = len(clist)
ax.imshow(
np.arange(n)[None, :].repeat(2, 0),
aspect="auto",
cmap=ListedColormap(clist),
norm=BoundaryNorm(np.arange(n + 1) - 0.5, n),
)
pos = list(ax.get_position().bounds)
x_text = pos[0] - 0.01
y_text = pos[1] + pos[3] / 2.0
fig.text(x_text, y_text, name, va="center", ha="right", fontsize=10)
# Turn off all ticks & spines
for ax in axes:
ax.set_axis_off()
fig.show()
if __name__ == "__main__":
_plot_color_cycle(
{name: colors for name, colors in globals().items() if isinstance(colors, list)}
)