Search found 12 matches

by yiliu021
Tue Nov 27, 2018 1:41 pm
Forum: NEURON + Python
Topic: Accessing inf_hh and tau_hh in the hh mechanism
Replies: 6
Views: 1446

Re: Accessing inf_hh and tau_hh in the hh mechanism

That is even better than using CoreNEURON. Thanks Ted!


Best,

Yi
by yiliu021
Mon Nov 26, 2018 8:03 pm
Forum: NEURON + Python
Topic: Accessing inf_hh and tau_hh in the hh mechanism
Replies: 6
Views: 1446

Re: Accessing inf_hh and tau_hh in the hh mechanism

I see. I'll try the CoreNEURON version. I think I can also directly calculate these values by myself because all I need is the membrane potential at each time at each location.

Thanks for answering my questions!

Best,

Yi
by yiliu021
Mon Nov 26, 2018 6:52 pm
Forum: NEURON + Python
Topic: Accessing inf_hh and tau_hh in the hh mechanism
Replies: 6
Views: 1446

Re: Accessing inf_hh and tau_hh in the hh mechanism

Maybe my understanding is wrong, but aren't h.htau_hh and h.hinf_hh two arrays of numbers related to the membrane potential? i.e. in the following link: https://icwww.epfl.ch/~gerstner/SPNM/node14.html in Equation 2.7, h.htau_hh should be the tau_x and h.hinf_hh should be the x_0 here when x = h. Th...
by yiliu021
Mon Nov 26, 2018 2:48 pm
Forum: NEURON + Python
Topic: Accessing inf_hh and tau_hh in the hh mechanism
Replies: 6
Views: 1446

Accessing inf_hh and tau_hh in the hh mechanism

Hello, I'm using NEURON in my python codes, and I'm trying to get the variables in the 'hh' mechanism. I saw the following in the documentation: 'rates_hh(v) computes the global variables [mhn]inf_hh and [mhn]tau_hh from the rate functions. usetable_hh defaults to 1.' I tried several times but could...
by yiliu021
Tue Apr 10, 2018 5:33 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Re: Recording Currents & Current Stimulation

Thanks for your correction. Somehow "seg.ri()" doesn't work for me ('nrn.Segment' object has no attribute 'ri'), but "h.ri(x, sec = section)" works.
by yiliu021
Mon Apr 09, 2018 8:31 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Re: Recording Currents & Current Stimulation

Oh it should be "section.Ra". I was looking at the wrong place in the Programmers' Reference.
by yiliu021
Mon Apr 09, 2018 8:02 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Re: Recording Currents & Current Stimulation

One more quick question: how do we access Ra (longitudinal resistances between the adjacent intracellular nodes of the axon itself)?

Thanks,

Yi
by yiliu021
Mon Apr 09, 2018 5:19 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Re: Recording Currents & Current Stimulation

Hi Ted,

That was a very clear and helpful answer to my questions. Thank you so much for your help!!!

Best,

Yi
by yiliu021
Fri Apr 06, 2018 8:02 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Re: Recording Currents & Current Stimulation

Hi Ted, Thanks for your advice. For the figure in the Programmer's Reference for the extracellular mechanism (the last figure in https://www.neuron.yale.edu/neuron/static/py_doc/modelspec/programmatic/mechanisms/mech.html#mechanisms), I still have several questions (suppose we only have one concentr...
by yiliu021
Wed Apr 04, 2018 8:37 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Re: Recording Currents & Current Stimulation

It works. I was able to validate the equation. Thanks! Two more questions: 1. I don't quite understand the layered model of the extracellular mechanism (the last figure here: https://www.neuron.yale.edu/neuron/static/py_doc/modelspec/programmatic/mechanisms/mech.html) It seems that we can add more l...
by yiliu021
Tue Apr 03, 2018 7:11 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Re: Recording Currents & Current Stimulation

Hi Ted, Thanks a lot for your quick reply! Your tips are very helpful. Now I've deleted the 'pas' mechanism and I'm only using 'hh' and 'extracellular'. One more question: I tried 'seg.ileak_hh' to get the leak current, but got an error " 'nrn.Segment' object has no attribute 'ileak_hh' ". However, ...
by yiliu021
Tue Apr 03, 2018 5:40 pm
Forum: NEURON + Python
Topic: Recording Currents & Current Stimulation
Replies: 12
Views: 3678

Recording Currents & Current Stimulation

Hello, I'm a new user of NEURON + Python. After studying the online resources including the NEURON documentation and forum, I still have several questions: 1. I want to verify the Hodgkin-Huxley equation: I_total = Cm*dV/dt + I_ion under extracellular stimulation. The mechanisms I inserted are 'pas'...