www.neuron.yale.edu

Okay, good point. I mean average membrane potential (say over one cycle of oscillation) by rest. The trouble is I am trying to constrain at least some of my channel kinetics to the experimentally measured values (at the soma in a pyramidal-type cell with terrible space clamp). The real cells that I'...

Hi, I am trying to optimize a model of an oscillating single-compartment neuron to get it to oscillate (and "rest") at a specific membrane potential. I've written python code to create a class for my neuron (using Neuron) and then by creating hundreds of thousands of instances of the model...

Thank you Ted!

How do you use a run method with a fixed time-step in python?

Hi, I'm trying to install python on a linux server running Python 2.7. What is the latest version of Neuron that is compatible with Python 2.7? Thanks!

Sorry, here's the Ih gating parameters, which I had to tweak a bit from the published equations to get them to resemble the fits in Fig. 11C: mInfFast = 1.0/(1 + exp((v + 67.4)/12.66)) mInfSlow = 1.0/(1 + exp((v + 57.92)/9.26)) mAlphaFast = (0.3*(2.89e-3*v -0.445))/(1 - exp((v + (0.445/(2.89e-3)))/2...

Hi, I am trying to implement a published single compartment-model in Neuron or Matlab that is not available on Modeldb: CLAYTON T. DICKSON, JACOPO MAGISTRETTI, MARK H. SHALINSKY, ERIK FRANSEN, MICHAEL E. HASSELMO, AND ANGEL ALONSO1Properties and Role of Ih in the Pacing of Subthreshold Oscillations ...

Hi, I am running a network simulation that makes use of the ranstream.hoc file from "The Randomness in Neuron Models" entry in the Documentation section on the website to connect neurons as in Hines & Carnevale, 2008 J Neurosci Methods. What I would like to now do is randomization of s...

Now I am seeing that there is a problem with this code, although I am not sure where it is. For random seeds between zero and one, the NetStim generates the same interevent intervals.

Hi Ted - Thanks for the quick and helpful reply. Sorry it has taken me a bit to reply. Per your advice I have generated some code to create a vector of random numbers using Random123. objref r r = new Random() r.negexp(1) r.Random123(1) objref rvec rvec = new Vector() proc genran() { local i, seed f...

Hi, I am using NetStim to generate poisson-distributed event times to drive synapses. To my surprise, everytime I run the simulation the NetStim events seem to be occurring at the same time. I would have thought that the poisson-distributed event times would be generated probabilistically every time...

Hi, I would like Neuron to give me a readout of the synaptic current that a neuron receives. Ordinarily, this would be easy because you could record the synaptic current(s) in a vector and then just average the contents of the vector. However, in my simulations the synaptic currents begin at a parti...

Thanks Ted. I am now testing the template against the otherwise identical non-templated hoc file specifying the cell.

I believe that I have solved the problem by including an init command in the template file: begintemplate Granule public soma create soma proc init() { create soma soma { nseg=1 diam=11.8 L=11.8 Ra=100 cm=1 insert GRC_LKG1 insert GRC_NA insert GRC_KV } } endtemplate Granule Now, after creating a new...

Hi, I am trying to create a template of a cell class in hoc. The only variable that I am declaring as public is soma, which contains all of the channel mechanisms. When I create an object from the template in Neuron, it clearly only has a capacitor (i.e. Neuron is not "seeing" the channels...