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Ion diffusion dynamics #433

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michaeldeistler opened this issue Sep 27, 2024 · 1 comment · May be fixed by #438
Open

Ion diffusion dynamics #433

michaeldeistler opened this issue Sep 27, 2024 · 1 comment · May be fixed by #438
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enhancement New feature or request high priority v1.0

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@michaeldeistler
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michaeldeistler commented Sep 27, 2024 •
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We should add a feature for diffusion dynamics, which would be useful to allow, e.g. Calcium diffusion throughout a cell. I am thinking of a syntax as:

cell = jx.read_swc(fname)

cell.insert(CAHVA())
cell.insert(CaNernstPotential())
cell.insert(CaPump())

cell.diffuse("CaCon_i")
cell.set("axial_resisitivity_CaCon_i", 0.001)
cell.make_trainable("axial_resisitivity_CaCon_i")
@michaeldeistler michaeldeistler added the enhancement New feature or request label Sep 27, 2024
@huangziwei
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ref: https://neuron.yale.edu/neuron/docs/reaction-diffusion

@michaeldeistler michaeldeistler changed the title Reaction diffusion dynamics Ion diffusion dynamics Oct 3, 2024
@michaeldeistler michaeldeistler linked a pull request Oct 3, 2024 that will close this issue
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enhancement New feature or request high priority v1.0
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Allow ion diffusion jaxleyverse/jaxley
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@huangziwei @michaeldeistler