www.neuron.yale.edu

Yes, there are many lessons to learn from this, like how to write code that is difficult for anyone else to use.

I'll have to reproduce this for myself. Please send the necessary morphometric data file(s) to ted dot carnevale at yale dot edu

Read the Programmer's Reference documentation of the RangeVarPlot class https://neuronsimulator.github.io/nrn/new_doc/visualization/rvarplt.html#rangevarplot . First, some definitions. Parent section and child section: The statement connect foo, bar connects section foo to section bar. bar is the pa...

Under Mint 19.3 (a Debian/Ubuntu variant) I did a fresh install of NEURON 8.x by executing pip3 install neuron as an ordinary user. However, when I tried checking a mod file for units inconsistencies, I found that the command modlunit failed. So did idraw but nrniv and nrnivmodl both worked. modluni...

If you want to load the GUI,
from neuron import h, gui

or
from neuron import h
h.load_file('nrngui.hoc')

Does that take care of the problem?

I then installed using tar.gz file of 7.6.7 version

So what's the current status? Does 7.6.7 work?

After installing the package

Did you do
sudo pip3 install neuron
or did you install from a .deb package?
If you used a .deb package, from where did you get it?

1. Is the model cell excitable? Attach an IClamp to the soma and apply a 1 ms current pulse that starts at t = 1 ms. Record and plot the current generated by the IClamp and v at the point of attachment. Adjust amplitude of the current pulse until a spike is elicited. Can't elicit a spike? Verify tha...

Under Windows it's easy. Assuming that an instance of the PWManager class exists (it will exist if you started NEURON by executing nrngui, or if your code has executed a load_file("nrngui.hoc") statement), then an instance of the PWManager class will exist and you can use its scale() funct...

Further comments: 1. The linear circuit could be implemented with the Linear Circuit builder. 2. The simulation of neural activity and calculation of PHI_REC(t) do not have to be done in the same session. Instead, the simulation and calculation of PHI_LFP(t) could be done once, and PHI_LFP(t) saved ...

I'm not clear how to do this in the real-time simulation of NEURON. Let's use proper terminology. You mean "time domain simulation" not "real-time simulation." It's clear that you know the difference between time domain and frequency domain, but some who read this thread may not...

1) I noticed in the gui a user can specify d_X in the geometry --> is there an equivalent way to do this when working in python? The d_X rule for spatial discretization is set nseg to the smallest odd number such that L/nseg <= d_X Code to do this is built into the CellBuilder. If you want to do it...

Yes, ModelDB would be a good place to start looking. Also, do you know of one or more published articles that provides a mathematical description of the exact phenomenon you want to represent in your model?

I've been trying to insert normally distributed noise onto my cells via IClamp . . . I have a vector of say 1x1000 (1 per ms) that I want to set as the amp value. Your code was heading in the right direction. Just a few changes and it will work. Here's a toy example (just a single cell) that might ...

I'm trying to connect multiple neuron cells . . . I need to take into account the connection probabilities between the cells. So I was thinking of multiplying the connection probability by the number of dendrites in the post synaptic cell. Why would that be useful? Is the number of dendrites presen...