visualize ❭ dendrogram ❭ _DendrogramDendriteStatistics

_DendrogramDendriteStatistics¶

class visualize.dendrogram._DendrogramDendriteStatistics(dendrogram_db, colormap_synapses=None)¶

Compute dendrite statistics from a dendrogram.

Dendrite statistics includes the total amount of dendritic length in a certain bin of soma distance. This is useful for calculating synapse statistics as well.

Parameters:¶

• dendrogram_db (list) – A list of _DendrogramSection objects.

• colormap_synapses (dict) – A dictionary mapping color to synapse types. The keys must match the synapse types in the dendrogram. Missing keys will be omitted from the visualization alltogether. Default: None (plot all synapses in black).

Attributes:¶

dendrogram_db¶

A list of _DendrogramSection objects.

Type:¶

list

colormap_synapses¶

A dictionary mapping color to synapse types. The keys must match the synapse types in the dendrogram. Missing keys will be omitted from the visualization alltogether. Default: None (plot all synapses in black).

Type:¶

dict

bins¶

The bins of the dendrite density histogram.

Type:¶

np.array

dendrite_density¶

The dendrite density histogram, i.e. the amount of dendritic length within a range of soma distance.

Type:¶

np.array

Methods:¶

plot(ax)	Plot the dendrite statistics.
_get_amount_of_dendrite_in_bin(min_, max_)	Get the amount of dendritic length in a certain bin of soma distance.
_plot_dendrite_hist(ax, xlim, binsize)	Base method for plotting a histogram of dendrite length on an matplotlib.axes.Axes object.
_compute_dendrite_hist(dist_end, binsize)	Compute the dendrite density histogram.