Search found 45 matches

by fabien tell
Mon Mar 14, 2016 11:14 am
Forum: Anatomically detailed models
Topic: setting non uniform conductances in a section
Replies: 6
Views: 6159

Re: setting non uniform conductances in a section

Hello again, By the time I posted the previous message I tried this and it seems to be working well : create DSI access DSI DSI { nseg=9 L=50 diam=1.5 Ra=150 cm=1 insert Na12 ena=60 } forsec "DSI" for (x,0) {gbar_Na12(x)=(950*x)} /* in fact "x" is is the "length" (the position?) of a negative seg (0...
by fabien tell
Mon Mar 14, 2016 9:06 am
Forum: Anatomically detailed models
Topic: setting non uniform conductances in a section
Replies: 6
Views: 6159

setting non uniform conductances in a section

Hello, I'm trying to set an non uniform conductance in a section. I read the "Specifying parameterized variation of biophysical properties" tutorial but I did not want to use the cell builder system. I need to put a statement in my hoc files. As suggested in the tutorial, I've tried the following bu...
by fabien tell
Sat Mar 05, 2016 1:44 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: recording the second derivative of an action potential
Replies: 13
Views: 9054

Re: recording the second derivative of an action potential

Hello Ted,

Thanks. You mean that I can implement it in the hoc file that launches my simulation ?
I didn’t know we could use derivative functions here as in modl files.

Have a good day

Fabien
by fabien tell
Fri Mar 04, 2016 5:41 am
Forum: Adding new mechanisms and functions to NEURON
Topic: recording the second derivative of an action potential
Replies: 13
Views: 9054

recording the second derivative of an action potential

Hello, I'd like to record from the second derivative (y") of an action potential and make graphs : y''=f(t) and a phase plot y''= f(x') = f(i_cap). If I well understand y'' is the derivative of I-cap against t. Should I create a mod file that read i or i_cap and the derive it? Thanks a lot Fabien
by fabien tell
Mon Nov 03, 2014 4:37 am
Forum: UNIX/Linux
Topic: Neuron under ubuntu 14.04
Replies: 0
Views: 4823

Neuron under ubuntu 14.04

Hello, I 've installed NEURON under Ubuntu. It works well but I have to compile the mod files every time I launch an hoc for the first time. I mean that if I close the session by closing the terminal and then I re launch Neuron to open the same hoc file, I get the usual message that indicates that m...
by fabien tell
Thu Apr 10, 2014 11:14 am
Forum: Adding new mechanisms and functions to NEURON
Topic: units errors in mod files
Replies: 3
Views: 2688

Re: units errors in mod files

Thanks a lot ted.

You're so helpful !!!
Regards
by fabien tell
Thu Apr 10, 2014 9:44 am
Forum: Adding new mechanisms and functions to NEURON
Topic: units errors in mod files
Replies: 3
Views: 2688

units errors in mod files

Hello, I'm trying to model an NMDA synapse. The mod file works well with the expected results but when I checked for the units I got the following message : units : 0.001 sec units: 1 The units of the previous two expressions are not conformable at line 40 in file ./synnmda.mod g= gmax * alpha(t <<E...
by fabien tell
Thu Feb 20, 2014 3:30 am
Forum: Adding new mechanisms and functions to NEURON
Topic: measuring the total current seen at the soma through SEvclam
Replies: 5
Views: 4222

Re: measuring the total current seen at the soma through SEv

Hello Ted, Thanks for your prompt reply. I think I made a mistake. If now I plot the Seclamp[0].i which I understand means the current measured by the electrode (for the newbies like myself: on a Current graph : plot what ? show object: SECLAMP[0] : i), instead of plotting Ik (plot what? section: so...
by fabien tell
Wed Feb 19, 2014 1:27 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: measuring the total current seen at the soma through SEvclam
Replies: 5
Views: 4222

measuring the total current seen at the soma through SEvclam

Hello, I apologize if my question has already been answered, I did find a clear answer, at least for me. I build a simple neuron (a soma connected to 4 primary dendrites each connected to 2 secondary dendrites). I inserted in each compartment a pas, a sustained IKdr and a transient IKA. I try to rec...
by fabien tell
Tue Apr 02, 2013 4:29 am
Forum: Adding new mechanisms and functions to NEURON
Topic: implementing recovery from inactivation
Replies: 7
Views: 3183

Re: implementing recovery from inactivation

Thanks a lot Ted,

Now it works fine and I implemented the inactivation rates as you suggested to avoid problems with integration procedure.

Thanks again for the time spent on this and Bravo for the neuron team !!
by fabien tell
Fri Mar 29, 2013 9:45 am
Forum: Adding new mechanisms and functions to NEURON
Topic: implementing recovery from inactivation
Replies: 7
Views: 3183

Re: implementing recovery from inactivation

Thanks a lot Ted, Sorry for the mistakes. My answers : "The mod file has FUNCTIONs binf() and b2inf(), but the bodies of these functions are identical, and you're not using b2inf() in the DERIVATIVE or INITIAL blocks". A: That's was a mistake in the derivate block : Now one should read b2'= (b2inf(v...
by fabien tell
Thu Mar 28, 2013 3:49 am
Forum: Adding new mechanisms and functions to NEURON
Topic: implementing recovery from inactivation
Replies: 7
Views: 3183

Re: implementing recovery from inactivation

Hello Ted, Thanks for your prompt reply. The protocol is as follows : a cell body with only pas, HH and IKA V clamp mode : (HH off) time duration : 2000 first epoch duration : 1000 at -20 mv to fully inactivate IKA second epoch: second duration: from 10 to 500 ms (20 ms increase) at -100 mV third ep...
by fabien tell
Tue Mar 26, 2013 6:37 am
Forum: Adding new mechanisms and functions to NEURON
Topic: implementing recovery from inactivation
Replies: 7
Views: 3183

implementing recovery from inactivation

Hello, I'm a new user of Neuron. I tried to make a model for a transient potassium current (IKV4). My model seems to give decent data when I generate activation and inactivation curves or when i inject it in current clamp. However, this current is characterized by two constants of inactivation and b...