www.neuron.yale.edu

The two easiest ways to figure out where you code is going wrong is to print variables, or to print an arbitrary message after certain flow control statements. But I can't figure out how to do this in from NMODL. Is there a way?

Okay, I got it to work apart from the important bit, i.e. the sodium current doesn't shut off. I had to give net_receive an argument, or else it would compile. I suspect that is where to problem is? I don't need to set up any netcons do it? The WATCH statement is running the whole time, isn't it? TI...

MOD code is still a bit of a dark art to me. Why does the if (v > thresh) statement need to be in the NET_RECEIVE block? Couldn't it just be in the breakpoint block? Just psuedo coding but something like if (v > thresh AND trigger == 0 ) { gnabar = 0 trigger=1 t0=t } if (trigger == 1 AND t-t0>delay)...

I am trying to make a cell that sets its sodium channel conductance to zero for a period of time after its action potential proc preprocess() { localobj, shutDownNetCon, nil for n=0, ncells-1 { cl.o(n).soma shutDownNetCon = new NetCon(&v(0.5), nil) shutDownNetCon.threshold = 0 shutDownNetCon.rec...

I wasn't sure if here was the best place to ask this, or in the networks section where Bill Lytton might see it; but anyway, The Wang and Buzsaki model in gamma oscillations is pretty popular. They use a measure of synchrony that I would love to have a look at, but for the life of me, I can't figure...

I can think of a couple of waves to get a sine wave of current injected, but I was just wondering what the best/quickest way was? Thanks

I'm with Ted. I made a network with 2 cells, then looked at the hoc code, and used it to make a ~200 cell model. It really is a lot simpler. This way you define template(s) for your cell types, then make a simple iterative function that links the cells up. Mine goes something like this begintemplate...

Okay. That all makes sense. Thanks a lot Ted. It's not quite as cognitively peaceful as Ohms law. But I'll just have to learn to live with it.

Peak amplitude of the EPSC when in voltage clamp (basal holding current to maximum deflection in current), peak amplitude of the EPSP when in current clamp (resting membrane potential to maximum deflection in membrane potential). Though I think I understand the cause of this now. The voltage clamp e...

Sorry that I'm not getting this. Everything you have said makes sense to me, but none of it seems to explain how, that if everytime charge moves in via Ii it goes out via Ic, how the membrane potential can change. But maybe this might be the explanation: Ic = C dV/dt I had always thought it was Imem...

I-ion + I-cap = 0 I-mem = I-ion + I-cap I-m = 0 No transmembrane current, no change in membrane voltage. What am I doing wrong here? I know when I plot I-ion and I-cap in neuron, (in a single compartment) they are equal and opposite. If I-ion is inward, does the apparent outward I-cap decharge/hyper...

A statement I read all the time is the "total membrane ionic current must be equal and opposite to the total membrane capacitive current" I appreciated this statement if you replace the word current with charge, i.e. any charge that goes into the cell has to EVENTUALLY come out of the cell...

So I was playing around with neuron last night. I had a 3x500um long cable, with passive properties vaguely like a layer V dendrite. I applied alphaSynapses over the length of the cable, and had a voltage clamp or current clamp electrode at one end. I saw your typical exponential attenuation of the ...

Well I suppose that makes sense (well has much as anything which contains the phrase "the system matrix is tridiagonal" can make sense to a humble pharmacologist). But It doesn't seem to make sense that variable timestep integrators should run SLOWER.

So my gap junction, inhibitory synapse coupled network (200 cells) runs pretty slowly. I tried various variable step methods; but they all ran considerably slower. And the local step method doesn't run at all. And it's not a very noisy network; most of the time, the cells have only a subtly fluctuat...