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I believe I got that conversion correct in my HOC code with the statement: To verify (with pas instead of hh and ratio_Ra_by_Re=1):
xraxial[0]*L*1e-4/nseg = 1.2729849
ri(0.9999) = 1.2729849

So not sure where I have faltered.

Thanks for suggesting to apply the voltage-divider rule. That cleared a lot of questions. To ease things further I replaced the HH with pas and then observed the plots for vint, vext, vm and i_membrane... and then the picture began to emerge. All the intermediate segments had their vint and vext equ...

Hi, I again have some query regarding the use of extracellular. I am trying to model a long axon having hh and extracellular mechanism with the connection to ground available at only at one of the terminals (say 1-end). The other end (0-end) of the axon is stimulated via IClamp and I keep track of t...

azylbertal... if you still require the above functionality, you could try out this tool here:
https://senselab.med.yale.edu/simtooldb ... ool=155716
(URL updated)

Do let me know if it works out or if you face any issues. Cheers!

Thanks, that explains it. I was a bit perplexed as I didn't see it coming and found the issue arising when I changed nseg as (nseg=5; nseg<=51; nseg+=2) but not when (nseg=51; nseg>=5; nseg-=2). Not I can see that in the former case, the location of the initial first node might have been drifting to...

One of the advantages of the NEURON forum is to randomly go through posts and pickup tips and tricks from others experience! Recently came across this post and my curiosity was piqued reading about SaveState. I was previously unaware of such a feature in NEURON and now realize that it has a lot of p...

Thanks for confirming that... an year back when I employed this approach I confess that I did not give it much thought and didn't think of it as a limitation in my model that I could first try working out a solution for by tweaking my channel properties... and if I didn't succeed then resort to such...

Thanks. I agree, it would be best to get the raw data (whenever available) for such purposes.

I am just surprised that changing nseg affected the recording of time 't' which I believe is independent of the number of compartments in a model. I could have expected the voltage vector to spring a surprise because of the change in system equations, but interestingly it records properly with the c...

Issue when updating nseg via custom init() I was trying to test my model for certain calculated parameters with various values of nseg. The calculations required me to record voltage as well as time using vectors. It seemed appropriate to implement such an exercise using loops. But I encountered som...

Had a query regarding the above approach for setting the resting membrane potential by injecting a constant current... ... I was wondering about its physiological meaning. Doesn't it reflect a constant current being injected externally... shouldn't a cell (ideally) be able to maintain its RMP using ...

So in context to my first question on this thread: ... does MRF while evaluating the fitness consider only the points provided (loaded from file) or does it implicitly perform a linear interpolation between the data points - and then use all these values for comparison? I suppose we can summarize th...

Based on your comments: the model trajectory is interpolated to the data trajectory and only the resulting values at the data locations are used in the "meansqerr" calculation which is defined as "return value is sum of w *(v1 - v2 )^2 / size". and error is weighted sum of normal...

Sorry, I wasn't sure what you meant by: ... to make the first comment of this reply, true. and so wanted to clarify. Was it regarding my first question on this thread: 1> If the data (voltage vs time) to be fitted is sampled at irregular intervals, does MRF while evaluating the fitness consider only...

Thanks, the workaround you suggested would be good enough for me in this case.

p.s. could I bring your attention to another post that I have not yet been able to resolve:
viewtopic.php?f=23&t=3112#p12897