I am curious who might be working with the DiffEq packages to do single neuron cell modeling up to small network simulations using Hodgkin Huxley or similar models, either single or multi-compartment, etc. If you’re out there or know someone heavy into Julia + comp neuroscience, I am very curious w…

Most of those cellular level electrophysiological equations are pretty straightforward IIRC. Is there a pacjage that implements standard cellular modeling equations? That would be a good place to add these.

That’s really impressive! A lot of these formulas are just outside the reach of macro scale analysis with EEG (which is more along the lines of what I do). However, it would be interesting to see how well certain frequency domains could be characterized be these. Thoeretically some of these domains …

That looks really solid! I hope I find an excuse to play with it : )

Indeed the implementation of the equations isn’t such a big deal (although, it can get more elaborate when you start adding cell geometry, and networks). I’m curious whether anyone has attempted using Hodgkin-Huxley or related models as an input layer to DiffEqFlux, and subsequently training on rea…

Anything new on this front? I am interested in a Julia alternative to the Brian simulator.

Nothing that I am aware of and I am from this field. It should not be too difficult to write a Julia replacement though. Same for Neuron. I know a couple people who wrote a grant about writing a Julia analog of Neuron, not sure they got funded. What is it that makes you turn away from Brian?

I love Brian actually. However, we are modling an compartmentalized system with astrocytes with a numerical technique that makes it difficult to work within the Synapse/NeuronGroup framework provided. I had to create an artificial Synaptic group and control the order of execution just so I could imp…

SpikingNeuralNetworks is a really good start on this. The thing I found missing when I briefly played with it was easily composing networks. I have a heap of code that binds LightGraphs to a metadata structure that is more suitable for this sort of thing. It’s littered with notes and untested right …

The thing I am worried about SpikingNeuralNetworks, and it should be a fairly simple addition, is that the time stepper is not that great. It should perhaps give the choice of using OrdinaryDiffEq.jl. For example, the iz neuron blows up in finite time… Hence the precision of the time spikes is not …

Neuroscientists using DifferentialEquations.jl ecosystem?

Specific Domains Modelling & Simulations

jpsamaroo December 5, 2019, 1:37am 3

I’ve been contributing to SpikingNeuralNetworks.jl, which has a few different spiking neuron types available.

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Neuroscientists using DifferentialEquations.jl ecosystem?

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