single_cell_parser ❭ cell ❭ PySection ❭ get_range_conductances

PySection.get_range_conductances¶

single_cell_parser.cell.PySection.get_range_conductances(range_vars, density=True)¶

Get the transmembrane conductance of each range variable separately.

Given a nested dictionary of range variables, this function computes the conductance of each variable in each segment. The conductance for each segment is not necessarily equal to the Cell parameters, but may be spatially distributed according to a non-uniform distribution. This method explicitly fetches the conductance from the NEURON sections after spatial distribution.

The nested range_vars keys must match the segment’s nested attributes.

Example:

>>> range_vars = {"NaTa_t": ["gNaTa_tbar"]}
>>> sections[0].NaTa_t.gNaTa_tbar
0.00001

Parameters:¶

• range_vars (dict) – A nested dictionary of range variables. The keys must match the segment’s nested attributes. It is possible to simply pass subsections of the Cell parameters here, e.g. neup[sec.label]["mechanisms"]["range"]

• density (bool, optional) – If True (default), the conductance is returned in units of conductance density: \(S / cm ^2\). If False, the total amount of conductivity is returned for each segment in units \(nS\) i.e. the conductance density multiplied by the area of the segment. Defaults to True.

Returns:¶

A dictionary of per-channel conductances for each segment.

Return type:¶

List[Dict]

Raises:¶

AssertionError – If the number of parameters with prefix g is not equal to 1 for each range variable.

Attention

Pay close attention to the units! For numerical stability, the absolute conductance is in units of \(nS\), while the conductance density is given in units of \(S / cm ^2\).