Search found 108 matches

by thats_karlo
Sun Aug 09, 2009 11:49 pm
Forum: Getting started
Topic: load several geomtery file
Replies: 14
Views: 17123

load several geomtery file

Hi, I'm not sure i select a good title for my post, however what i like to do is run a specific test for several cells. For one cell i have the following code load_file("C1.hoc") load_file("run_simulation") print "print the result" , val My question is : how can i run t...
by thats_karlo
Fri Jan 30, 2009 2:44 pm
Forum: Getting started
Topic: spike duration
Replies: 12
Views: 12523

Re: spike duration

I checked for new space plot and still the same problem. i have sent the code to e-mail address.
by thats_karlo
Fri Jan 30, 2009 10:24 am
Forum: Getting started
Topic: spike duration
Replies: 12
Views: 12523

Re: spike duration

Dear Ted, Thank you so much.I am always learning a lot from my mistakes and your comments. Just as last question in this topics: I used shape plot/space plot to have tw_ftx Vs. distance form soma. But, when i increased compartments number (nseg*=3), in order to get a smoother curve, the curve gets a...
by thats_karlo
Wed Jan 28, 2009 10:25 am
Forum: Getting started
Topic: spike duration
Replies: 12
Views: 12523

Re: spike duration

probably, i could say computational expensive! 1000 compartments -> 1000 vectors to save membrane potential.. i thought maybe there is another way to find spike duration without recording at each compartment. If there is no other way, then i'm going to record Vm of all compartments. Thank you so much.
by thats_karlo
Tue Jan 27, 2009 11:27 pm
Forum: Getting started
Topic: spike duration
Replies: 12
Views: 12523

Re: spike duration

Dear Ted, Thanks for your reply and as always it was useful. As i know,to determine the amplitude of action potential, experimentalist -at least in our laboratory- usually finds it by: difference between the membrane at onset of action potential, where dv/dt >12(10-15), and the maximum value of memb...
by thats_karlo
Tue Jan 27, 2009 9:40 pm
Forum: Getting started
Topic: spike duration
Replies: 12
Views: 12523

Re: spike duration

I'm using the following code (as *.mod file) to detect maximum of signal amplitude: NEURON { SUFFIX fmax RANGE vmax tmax } ASSIGNED { v (millivolt) vmax (millivolt) tmax (ms) } INITIAL { vmax = v tmax = t } BREAKPOINT { VERBATIM if (v > vmax) { vmax = v; tmax = t; } ENDVERBATIM }
by thats_karlo
Tue Jan 27, 2009 7:57 pm
Forum: Getting started
Topic: spike duration
Replies: 12
Views: 12523

Re: spike duration

Spike duration is measured from the peak of the spike to when membrane potential declines to 33% of peak amplitude.
by thats_karlo
Mon Jan 26, 2009 1:14 pm
Forum: Getting started
Topic: spike duration
Replies: 12
Views: 12523

spike duration

Hello, when an action potential propagates, how can we determine the duration of action potential Vs. distance from soma? For a single compartment model, we can record membrane potential and time, then easily we can determine the the duration of signals. But for a multi-compartment model, that's not...
by thats_karlo
Thu Jan 22, 2009 1:08 pm
Forum: Getting started
Topic: a specific function form in the current clump
Replies: 13
Views: 5348

Re: a specific function form in the current clump

the signal shape has saved in *.dat file. Can i use the SEClamp inserted in a specific dendritic section, and use the same algorithm as described in previous posts, to transfer the signal to the cell?
by thats_karlo
Thu Jan 22, 2009 12:40 pm
Forum: Getting started
Topic: a specific function form in the current clump
Replies: 13
Views: 5348

Re: a specific function form in the current clump

I want to insert only one , let's say, point process at a position on denderitic section.The problem i have is; to transfer a specific signal shape to a section (as voltage clamp).
I guess voltage clamp is not a good idea, then what i have to do?
by thats_karlo
Thu Jan 22, 2009 1:43 am
Forum: Getting started
Topic: a specific function form in the current clump
Replies: 13
Views: 5348

Re: a specific function form in the current clump

Dear Ted,

Thanks so much for your help. i have another question to ask;

what strategy do we have to follow; to study the propagation of a specific form of a signal. suppose,we have the signals in the from of a *.dat file and we want to insert this signal on different sections of the molded cell.
by thats_karlo
Tue Jan 13, 2009 9:45 am
Forum: Getting started
Topic: a specific function form in the current clump
Replies: 13
Views: 5348

Re: a specific function form in the current clump

Dear Ted, Thank so much for your help. The current clamp protocol works exactly as i wanted. Please, tell me what we have to do if we want to apply the same kind of *.dat file to a voltage clamp protocol. For voltage clamp, i'm using SEClamp(). the previous trick, is not working here like stim.dur2=...
by thats_karlo
Mon Jan 12, 2009 5:57 pm
Forum: Getting started
Topic: a specific function form in the current clump
Replies: 13
Views: 5348

Re: a specific function form in the current clump

Thanks, I forgot to mentioned the *.dat file containes tow column; first time and second one, the value of function. if by scanvar() function we read the data file as follow: ... f.ropen("data1.dat") for i=0, row_file -1 { // row-file =size of the file T.x[i]=f.scanvar() // time TV.x[i]=f....
by thats_karlo
Sun Jan 11, 2009 2:08 pm
Forum: Getting started
Topic: a specific function form in the current clump
Replies: 13
Views: 5348

a specific function form in the current clump

Dear All, Instead of step current in the current clamp protocol, i want to use a specific function. For this function i have only a file of data in format of *.dat (no analytical formula;like a ramp, sinusoidal or..). I want my current clamp protocol follows the pattern of the data in the *.dat file...
by thats_karlo
Thu Dec 18, 2008 2:14 pm
Forum: General questions and discussions about computational neuroscience
Topic: action potectial amplitude
Replies: 5
Views: 12721

Re: action potectial amplitude

The modeler's equivalent is channel densities. Leak probably won't have much effect. I'm using sthA.hoc in Tutorial section of NEURON. in this model except leak current we only have gnabar_hh and gkbar_hh. increasing gnabar to 0.2 (default is 0.12). makes cell more excitable. and it generates AP ev...