braincell

Subclass braincell.SingleCompartment, attach SodiumFixed and PotassiumFixed ions with Na_HH1952 and K_HH1952 channels, add an IL leak channel, then call init_state() and step with cell.update(I_ext) inside a brainstate environment context.

Load the geometry with braincell.Morphology.from_swc, create a braincell.Cell with a CV policy, paint cable properties and density channels over regions, place clamps and probes at locsets, then call init_state() and cell.run(dt, duration).

SingleCompartment models one isopotential point neuron where size sets independent neurons, while Cell discretizes a morphology into coupled control volumes for spatial voltage dynamics. Use Cell only when geometry, branching, or location-specific stimulation matters.

Use exp_euler as the accuracy-oriented default for stiff HH gating, ind_exp_euler for faster large vectorized simulations, and staggered or cn_exp_euler for multicompartment cables. Always pass the solver name explicitly and verify convergence by halving dt.

Use a dynamic calcium ion such as CalciumDetailed, then combine it with a potassium ion via braincell.MixIons(k, ca) in that exact order and attach a channel like AHP_De1994 to the mixed owner. The potassium ion supplies the reversal potential while calcium drives concentration dynamics.

Author a custom mechanism only after confirming no built-in or literature-derived class matches the required kinetics. Use the HH template for independent gates, Markov for coupled state probabilities, and validate formulas, lifecycle, and model-level behavior against a reference.