Circle Markers

Create a signal

import hyperspy.api as hs
import numpy as np

# Create a Signal2D with 1 navigation dimension
rng = np.random.default_rng(0)
data = np.ones((50, 100, 100))
s = hs.signals.Signal2D(data)

This first example shows how to draw static circles

# Define the position of the circles (start at (0, 0) and increment by 10)
offsets = np.array([np.arange(0, 100, 10)]*2).T

m = hs.plot.markers.Circles(
    sizes=10,
    offsets=offsets,
    edgecolor='r',
    linewidth=5,
    )

s.plot()
s.add_marker(m)

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• 

/opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/rsciio/utils/rgb_tools.py:62: VisibleDeprecationWarning: The module `rsciio.utils.rgb_tools` has been renamed to `rsciio.utils.rgb` and it will be removed in version 1.0.
  warnings.warn(
/opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/rsciio/utils/rgb_tools.py:62: VisibleDeprecationWarning: The module `rsciio.utils.rgb_tools` has been renamed to `rsciio.utils.rgb` and it will be removed in version 1.0.
  warnings.warn(

Dynamic Circle Markers

This second example shows how to draw dynamic circles whose position and radius change depending on the navigation position

s2 = hs.signals.Signal2D(data)

offsets = np.empty(s.axes_manager.navigation_shape, dtype=object)
sizes = np.empty(s.axes_manager.navigation_shape, dtype=object)

for ind in np.ndindex(offsets.shape):
    offsets[ind] = rng.random((5, 2)) * 100
    sizes[ind] = rng.random((5, )) * 10

m = hs.plot.markers.Circles(
    sizes=sizes,
    offsets=offsets,
    edgecolor='r',
    linewidth=5,
    )

s2.plot()
s2.add_marker(m)

• 
• 

/opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/rsciio/utils/rgb_tools.py:62: VisibleDeprecationWarning: The module `rsciio.utils.rgb_tools` has been renamed to `rsciio.utils.rgb` and it will be removed in version 1.0.
  warnings.warn(
/opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/rsciio/utils/rgb_tools.py:62: VisibleDeprecationWarning: The module `rsciio.utils.rgb_tools` has been renamed to `rsciio.utils.rgb` and it will be removed in version 1.0.
  warnings.warn(

sphinx_gallery_thumbnail_number = 4