braincell.ion module

Calcium Ions & Dynamics

Calcium	Base class for modeling the calcium ion species.
CalciumFixed	Fixed calcium dynamics.
CalciumDetailed	Dynamic calcium concentration with a Nernst-computed reversal.
CalciumFirstOrder	First-order calcium concentration model with rectified current drive.
CalciumInitNernst	Fixed Ci/Co calcium model with E initialized from Nernst.
CdpCAM_MA2024_PC	Purkinje-cell calcium pool: pump, buffers, Calbindin, PV, CaM.
CdpCR_MA2020_GrC	Granule-cell calcium pool: pump, generic buffers, Calretinin.
CdpHVA_SU2015_DCN	HVA-current-driven calcium pool for the deep cerebellar nuclei.
CdpLVA_SU2015_DCN	LVA-current-driven calcium pool for the deep cerebellar nuclei.
CdpStC_MA2020_GoC	Golgi-cell calcium pool: pump, generic buffers, PV, and CaM.
CdpStC_CAMOnly_MA2020_GoC	Import of the calmodulin-only CdpStC_CAMOnly_MA20_GoC.mod.
CdpStC_NoCAM_MA2020_GoC	BrainCell-factored calcium pool: pump, non-CaM buffers, no CaM.
CdpStC_MA2025_BC	Calcium pool for the basket cell, no calmodulin buffering.
CdpStC_RI2021_SC	Calcium pool for the stellate cell, no calmodulin buffering.
ToyCaBindingKinetic_SU2015_DCN	Minimal reversible calcium-binding toy for KineticIon validation.
ToyCaBindingSourceKinetic_SU2015_DCN	Minimal reversible calcium-binding toy with a constant Ci source.
ToyCaBindingIcaSourceKinetic_SU2015_DCN	Minimal reversible calcium-binding toy with current-driven Ci source.
ToyCaPumpFactorKinetic_SU2015_DCN	Minimal factor-crossing toy with cytosolic and pump-area compartments.
ToyDiamFactorKinetic_SU2015_DCN	Minimal geometry-factor toy with runtime-derived cytosolic strip factors.

Potassium Ions

Potassium	Base class for modeling the potassium ion species.
PotassiumFixed	Fixed potassium dynamics.
PotassiumInitNernst	Fixed Ci/Co potassium model with Nernst-initialized E.

Sodium Ions

Sodium	Base class for modeling the sodium ion species.
SodiumFixed	Fixed Sodium dynamics.
SodiumInitNernst	Fixed Ci/Co sodium model with E initialized from Nernst.

Helpers

braincell.ion.build_placeholder_ions(size=(1,))

Return default Na/K/Ca fixed-ion containers for scaffolding.

Used by test doubles and by HHTypedNeuron construction before the real runtime ion containers are instantiated.

Parameters:

size (tuple of int, optional) – Varshape of the ion containers. Defaults to (1,).

Return type:

dict[str, object]