www.neuron.yale.edu

Dear Ted, Thank you for your suggestions! Now I was able to build a bash script to control the opening and closing of Neuron. Now for collecting the results, can I create something inside of NEURON so that every time I start a simulation by opening the file, I can append my results? It seems like in...

Dear Ted! Thank you for the response! Its been a while since I posted this thread, and I haven't gotten a chance to do multiple simulations until now. The code you provided to me seemed really helpful. However, this seems to work only within one hoc file. Now for my case, I actually need to change t...

Dear Ted, I have a really basic question about what is being collected when I use e_extracellular. Recall that my model is on ephaptic effect, with one row of cells firing, creating an extracellular field that affect the second row of cells fire, and these two rows are not connected. I inserted extr...

Hi Ted, I have a question on insert e_extracellular on myelinated axon. If I have two nodes within the myelin, and I want to insert e_extracellular on the nodes that are NOT within the myelin, can I still use "for(x,0)" to insert it, or do I need to calculate the specific positions on the ...

Dear Ted, I'm wondering if I can create a "automatic control" file in NEURON. Specifically, I want to run several .hoc files simultaneously, and for each .hoc file I want them to open and then close on their own. Right now I'm doing the work of changing a parameter, then opening each file ...

I plotted the extracellular's i_membrane, and compare it with what I plotted by adding all of the ionic current +capacitive+passive current together, it appeared to me that my added current was larger. I'd have to see this for myself. Ted, I'm going to send this to your e-mail. Please check accordi...

Hi Ted, Don't do that. Use extracellular's i_membrane, which includes all ionic currents and membrane capacitive current. Thank you for answering my questions! So I plotted the extracellular's i_membrane, and compare it with what I plotted by adding all of the ionic current +capacitive+passive curre...

Hi Ted, I'm trying to inject a pulse train into my cell. I used the .mod file that you posted here: http://www.neuron.yale.edu/neuron/faq#playevents A: Right you are. Pick up pulsedistrib.zip, and unzip it into an empty directory. This creates a subdirectory called pulsedistrib, which contains Ipuls...

Hello Ted, I'm sorry that it took a while for me to respond to this thread. I thought that you didn't respond. Let me reword my question, and let's just discard everything that I said before about creating 10 neurons. Now, to make this simple, if I have two cells in Neuron, I stimulate neuron1 makin...

Hi Ted, Just a simple question. Are there any ways that I can save only the graphs after I run my model? My problem is that it usually takes long for my model to run, and after each run, I need to zoom in to look at specific regions. Thus I want to just save my graphs so later on when I need to do a...

Hi Ted, Don't they interact with each other by means of field effects? Yes they do, but only with field effects. So they don't have any other interactions. For the moment, let's just think about one cell in the "second row." You want the extracellular potential at the surface of this cell ...

Hi Ted, You are right on the fact that electrical field is a vector (both value and directions). I guess both my PI and I just wanted to see the field on x-y directions. 2. What generates the field you're interested in--the membrane current of the cell itself, or current injected into the medium by ...

And how can I create a list of cells that are separated, if this is the way doing it? Are there any link or tutorials? I looked through the List class but didn't find anything helpful for my problem... Thanks!

Hi Ted, So I'm trying to use only one cell model(.hoc), and by changing a parameter of my extracellular field stimulation, I will collect the current information responded from the stimulation. Everytime I use the cell model, there is only one variable value that I need to change. However, I found t...

Hi Ted, So I'm trying to plot a extracellular field movie space plot. I have done a space plot on e_extracellular vs. a bunch of points on my neuron, but I'm also trying to plot out the field vs. points on my neuron. It should be really easy since it is just the spatial derivative of extracellular v...