trackpy.annotate3d¶

trackpy.annotate3d(centroids, image, **kwargs)¶

Annotates a 3D image and returns a scrollable stack for display in IPython.

Parameters:

Parameters:	centroids : DataFrame including columns x and y image : image array (or string path to image file) circle_size : Deprecated. This will be removed in a future version of trackpy. Use plot_style={‘markersize’: ...} instead. color : single matplotlib color or a list of multiple colors default None invert : If you give a filepath as the image, specify whether to invert black and white. Default True. ax : matplotlib axes object, defaults to current axes split_category : string, parameter to use to split the data into sections default None split_thresh : single value or list of ints or floats to split particles into sections for plotting in multiple colors. List items should be ordered by increasing value. default None imshow_style : dictionary of keyword arguments passed through to the Axes.imshow(...) command the displays the image plot_style : dictionary of keyword arguments passed through to the Axes.plot(...) command that marks the features
Returns:	pims.Frame object containing a three-dimensional RGBA image

centroids : DataFrame including columns x and y

image : image array (or string path to image file)

circle_size : Deprecated.

This will be removed in a future version of trackpy. Use plot_style={‘markersize’: ...} instead.

color : single matplotlib color or a list of multiple colors

default None

invert : If you give a filepath as the image, specify whether to invert

black and white. Default True.

ax : matplotlib axes object, defaults to current axes

split_category : string, parameter to use to split the data into sections

default None

split_thresh : single value or list of ints or floats to split

particles into sections for plotting in multiple colors. List items should be ordered by increasing value. default None

imshow_style : dictionary of keyword arguments passed through to

the Axes.imshow(...) command the displays the image

plot_style : dictionary of keyword arguments passed through to

the Axes.plot(...) command that marks the features

Returns:

pims.Frame object containing a three-dimensional RGBA image