www.neuron.yale.edu

in DBS, which the pulses are short, the high frequency is important to the AP generation. Stimulus pulse duration is important, but you'll never guess why unless you take the time to learn more about the mechanistic basis of cellular excitability. And that should be covered in a good introductory c...

It is the rare EE major that has much reading, classroom, or hand-on exposure to neurophysiology, and in particular practical aspects of stimulating excitable tissue (nerve, muscle). That's something you'll have to correct sooner or later if you plan to work at the interface between engineering and ...

By setting a pulse duration of 100 ms, I see AP generation. However, if I reduce the pulse width to 0.1 ms, APs are not generated. Is this expected behavior

To help guide my answer, it would be useful to know if your background is primarily in physics/math/engineering, or in biology.

First thing to check: what are the anatomical and biophysical properties of your model cell? What does
somaL.psection()
tell you? and how about somaR.psection()?

Could it be Linux is not GUI based ?? I think you'd know by now if the OS and hardware on the machine on which you're running NEURON have GUI support. Are you executing NEURON on a laptop or desktop machine, or on some remote server? Assuming NOT the latter, what happens if you execute neurondemo i...

Instead of matplotlib and pyplot, try plotly.

Oops, instead of replying to a copy of your original post, I edited it, inserting my replies. How careless of me; done when I was hurrying to get to the point but not cautious about how it was done. But at least I didn't destroy your questions, and perhaps my replies will be helpful to you and others.

This example of how to develop and use a Linear Circuit implementation of a gap junction via Python https://www.neuron.yale.edu/ftp/ted/neu ... cirgap.zip might provide some useful hints.

Interesting. Needs to be brought to the attention of the NEURON development team. Regarding what you should do, if your goal is to do science, decide what's most important to you--cosmetics, or results; spending time trying to work around problems in development code, or addressing scientific proble...

Sure, if you want to rewrite those statements in Python, go ahead. Here's a seed to get you started. I have even corrected the comment in the second statement.

If a section's geometry is specified with the "stylized" method (assigning values to L and diam), the section will be a cylinder of length L and diameter diam, and it will look like a cylinder in graphical renderings that show diameter. If the geometry is specified with the pt3d method (a ...

There are two problems. First is accessing the values of the variables that you want. Second is accessing them at the times that you want. Typically you want to capture these variables at fixed intervals, not just when the ARTIFICIAL_CELL receives an event. The easiest case is when the variables are...

Around here we all have egg on our faces.

Given all that beautiful documentation at nrn.readthedocs.io I find it even more surprising that it is so difficult to discover the answer to your question. One would expect it to be with the other documentation about Section, but it isn't. But wait, there's a Search feature . . . which isn't very h...

Good questions. tstop and continuerun are part of NEURON's standard run system, much of which is implemented in hoc. You'll find the hoc component of the standard run system in a file called stdrun.hoc. You can learn a lot by finding and browsing through stdrun.hoc (hints: use your OS's file search ...