visualize ❭ current_visualizer ❭ CurrentAnalysis

CurrentAnalysis¶

class visualize.current_visualizer.CurrentAnalysis(cell_or_dict=None, secID='bifurcation', segID=-1, rangeVars=None, colormap=None, tVec=None)¶

Plot the individual ion currents and the net current of a cell simulation.

Inspect the individual ion currents and the net current of a single cell segment.

Initialize the CurrentAnalysis object.

Parameters:¶

• cell_or_dict (dict or Cell) – The cell object, or a dictionary containing equivalent simulation data.

• secID (int) – The index of the section. Default is ‘bifurcation’.

• segID (int) – The index of the segment. Default is -1.

• rangeVars (list) – The names of the ion currents to plot. Default is None, which plots all ion currents.

• colormap (dict) – The colormap for the ion currents. Default is None.

• tVec (list) – The time vector. Default is None. Only necessary if cell_or_dict is a dictionary.

Attributes:¶

mode¶

‘cell’ or ‘dict’.

Type:¶

str

cell¶

The cell object, or a dictionary containing equivalent simulation data.

Type:¶

Cell | dict

t¶

The time vector.

Type:¶

list

sec¶

The section of the cell.

Type:¶

Section

secID¶

The index of the section.

Type:¶

int

segID¶

The index of the segment.

Type:¶

int

seg¶

The segment of the cell.

Type:¶

Segment

rangeVars¶

The names of the ion currents to plot. Default is None, which plots all ion currents.

Type:¶

list

colormap¶

The colormap for the ion currents.

Type:¶

dict

depolarizing_currents¶

The depolarizing currents.

Type:¶

np.array

hyperpolarizing_currents¶

The hyperpolarizing currents.

Type:¶

np.array

depolarizing_currents_sum¶

The sum of the depolarizing currents.

Type:¶

np.array

hyperpolarizing_currents_sum¶

The sum of the hyperpolarizing currents.

Type:¶

np.array

net_current¶

The net current.

Type:¶

np.array

depolarizing_currents_normalized¶

The normalized depolarizing currents.

Type:¶

np.array

hyperpolarizing_currents_normalized¶

The normalized hyperpolarizing currents.

Type:¶

np.array

voltage_trace¶

The voltage trace.

Type:¶

np.array

Methods:¶

_get_current_by_rv(rv)	Get the section current by the range variable name.
_compute_current_arrays()	Compute the ionic currents of a section.
plot_areas(ax, normalized, plot_net, plot_voltage, t_stim, select_window_relative_to_stim)	Plot the ion currents and the net current of a cell simulation.
plot_lines(ax, legend)	Plot the ion currents and the net current of a cell simulation.