Radial diffusion using RxD?

Extending NEURON to handle reaction-diffusion problems.

Moderators: hines, wwlytton, ramcdougal

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bschneiders
Posts: 34
Joined: Thu Feb 02, 2017 11:30 am

Radial diffusion using RxD?

Post by bschneiders » Tue Apr 10, 2018 12:33 pm

Is it possible to use the built-in RxD shells to support radial diffusion? I have only seen an RxD shell used as a membrane, and was wondering if they can also be used as segments of a section (i.e. multiple shells of a soma) as well.
Thanks!

ramcdougal
Posts: 213
Joined: Fri Nov 28, 2008 3:38 pm
Location: Yale School of Public Health

Re: Radial diffusion using RxD?

Post by ramcdougal » Tue Apr 10, 2018 10:16 pm

Yes but it's not currently anywhere near as clean as it should be.

Diffusion between shells within a section can be implemented using MultiCompartmentReactions similarly to how one might do a leak between the ER and the cytosol. I don't have an example of this, but I'll try to make one tomorrow unless someone beats me to it.

What I should do is have nested shells just be a type of region where things diffuse between the shells just like they diffuse longitudinally.

bschneiders
Posts: 34
Joined: Thu Feb 02, 2017 11:30 am

Re: Radial diffusion using RxD?

Post by bschneiders » Thu Apr 12, 2018 12:46 pm

Yes, nested shells would be awesome! I can get away with a single outer shell for now, as concentrations in that shell are what I'm most interested in, but nested shells would definitely be of interest and very useful. Thanks!

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