trackpy.plot_traj¶

trackpy.plot_traj(traj, colorby='particle', mpp=None, label=False, superimpose=None, cmap=None, ax=None, t_column=None, pos_columns=None, plot_style={}, **kwargs)¶

Plot traces of trajectories for each particle. Optionally superimpose it on a frame from the video.

Parameters:

traj : DataFrame The DataFrame should include time and spatial coordinate columns. colorby : {‘particle’, ‘frame’}, optional mpp : float, optional Microns per pixel. If omitted, the labels will have units of pixels. label : boolean, optional Set to True to write particle ID numbers next to trajectories. superimpose : ndarray, optional Background image, default None cmap : colormap, optional This is only used in colorby=’frame’ mode. Default = mpl.cm.winter ax : matplotlib axes object, optional Defaults to current axes t_column : string, optional DataFrame column name for time coordinate. Default is ‘frame’. pos_columns : list of strings, optional Dataframe column names for spatial coordinates. Default is [‘x’, ‘y’]. plot_style : dictionary Keyword arguments passed through to the Axes.plot(...) command

Returns:

Axes object

See also

plot_traj3d

the 3D equivalent of plot_traj