Search found 36 matches

by maria.kesa
Sat Jun 18, 2016 10:36 pm
Forum: Other questions
Topic: My integrate and fire pre-synaptic input isn't spiking
Replies: 9
Views: 4637

Re: My integrate and fire pre-synaptic input isn't spiking

Thank you, Ted!
I can also see that there's a tiny depolarization corresponding to an arriving spike.
I need to make my neurons spike at a certain frequency range. Should I therefore add extra synapses with the same spike arrival probabilities?

Thank you,
Maria
by maria.kesa
Thu Jun 09, 2016 1:02 pm
Forum: Other questions
Topic: My integrate and fire pre-synaptic input isn't spiking
Replies: 9
Views: 4637

Re: My integrate and fire pre-synaptic input isn't spiking

Thank you so much for the thorough explanations! I learned a lot. I'm reading the NEURON book, but it's taking some time. I am still trying to make my neuron spike in response to the intfire1. I figured out how to make the spikes in intfire come more often, I had a large refractory period before and...
by maria.kesa
Sat Jun 04, 2016 2:51 pm
Forum: Other questions
Topic: My integrate and fire pre-synaptic input isn't spiking
Replies: 9
Views: 4637

Re: My integrate and fire pre-synaptic input isn't spiking

Thank you for your response and your help, Ted. I really appreciate it. Now, for the questions. 1. Yes, there is a celsius parameter in the simulation. It was set in the LAcells_template.hoc file, which is loaded in the simulation file that I made. I also set it in my made file and it didn't change ...
by maria.kesa
Sun May 29, 2016 4:30 pm
Forum: Other questions
Topic: My integrate and fire pre-synaptic input isn't spiking
Replies: 9
Views: 4637

Re: My integrate and fire pre-synaptic input isn't spiking

Dear Ted, Firstly, by the synaptic interactions I meant connections from other excitatory and inhibitory cells, not the synapses for the background external spike trains. I don't know about the temperature variable. The main code of the model doesn't contain references to temperature. Which type of ...
by maria.kesa
Tue May 24, 2016 1:12 pm
Forum: Other questions
Topic: My integrate and fire pre-synaptic input isn't spiking
Replies: 9
Views: 4637

My integrate and fire pre-synaptic input isn't spiking

Hello, I'm working with a model of the amygdala https://senselab.med.yale.edu/modeldb/ShowModel.cshtml?model=150288 I want to induce gamma oscillations in the model and I'm working with a paper, Koppell, N., Börgers, C., Pervouchine, D., Malerba, P., Tort, A. 2010. ``Gamma and Theta Rhythms in Bioph...
by maria.kesa
Sat Feb 20, 2016 2:09 pm
Forum: Modeling networks
Topic: NetStim
Replies: 5
Views: 8568

Re: NetStim

Thanks, Ted, but what does it mean to receive a positive or negative weight event?

Maria
by maria.kesa
Fri Feb 19, 2016 2:10 pm
Forum: Modeling networks
Topic: NetStim
Replies: 5
Views: 8568

Re: NetStim

Thank you, Ted! I initially found this document on a google search http://www.neuron.yale.edu/neuron/static/docs/help/neuron/neuron/mech.html#NetStim I guess the content is the same as in what you referenced. I just couldn't understand how you set it so that the spike trains terminate at a predefine...
by maria.kesa
Sat Feb 13, 2016 1:18 pm
Forum: Modeling networks
Topic: NetStim
Replies: 5
Views: 8568

NetStim

Hello, I need to stimulate a population of cells with a spike train for a certain time period. Would NetStim be the right solution? However, I can't find how to specify the time period for which to emit the spikes to the target cell. Do I have to instead specify the number of spikes as s.number? Tha...
by maria.kesa
Mon Jan 25, 2016 10:16 am
Forum: Other questions
Topic: recording currents
Replies: 23
Views: 4788

Re: recording currents

Thank you, Ted! I'll be waiting.

Maria
by maria.kesa
Sun Jan 24, 2016 1:38 pm
Forum: Other questions
Topic: recording currents
Replies: 23
Views: 4788

Re: recording currents

I tried this, but at the end sumlfp.count() 0 proc record_timestep() { local i localobj tmpobj, intermsumlfp, tmp intermsumlfp= new Vector() for i=0,$o1.count()-1 { tmpobj = $o1.o(i) if (tmpobj.isampa == 1) { tmp=abs(tmpobj.iampa)+abs(tmpobj.inmda) intermsumlfp.append(tmp) } else { tmp=abs(tmpobj.ig...
by maria.kesa
Fri Jan 22, 2016 10:10 am
Forum: Other questions
Topic: recording currents
Replies: 23
Views: 4788

Re: recording currents

Dear Ted, I still have memory issues at NSG even after setting the timestep for recording at 1ms. Right now i tried removing the currents to inhibitory neurons-- you were right, they don't contribute so much to the lfp. But I think that memory will still be an issue? In terms of the memory requireme...
by maria.kesa
Fri Jan 22, 2016 8:16 am
Forum: Other questions
Topic: recording currents
Replies: 23
Views: 4788

Re: recording currents

Thanks for your help, Ted. Recording at 1 ms precision makes the memory manageable and the NSG cluster runs the simulation.

And you were right, only the pyramidal cell inputs should be counted in the approximation to the LFP.
by maria.kesa
Thu Jan 21, 2016 2:56 pm
Forum: Other questions
Topic: recording currents
Replies: 23
Views: 4788

Re: recording currents

I set the recording resolution to 1 ms, maybe this will help. The simulation is running right now.

I did as you said. Summed the vectors together at the end of the program.
by maria.kesa
Thu Jan 21, 2016 1:41 pm
Forum: Other questions
Topic: recording currents
Replies: 23
Views: 4788

Re: recording currents

Dear Ted, I was using the NSG cluster and it ran out of memory when recording the vectors. I was just using one node for the simulation. We're working with a rough approximation to the LFP, where we treat all of the synaptic currents equally, just take their absolute value and add together. We shoul...
by maria.kesa
Wed Jan 20, 2016 3:43 pm
Forum: Other questions
Topic: recording currents
Replies: 23
Views: 4788

Re: recording currents

Dear Ted, How would you implement the LFP summation over all the synapses in a memory efficient way. It looks like I can't even run the simulation on a cluster because the current implementation is so memory intensive. I need to sum all of the absolute values of all of the currents at the synapses a...