www.neuron.yale.edu

Hi Ted, I have a question on the previous post regarding the DC space constant (lambda= sqrt ( (d*Rm)/4*Ri)) ). In an existing cell model, is there a way to calculate Rm? Can one utilize the extracellular mechansim, use i_membrane for transmembrane current and divide the resting mebrane potential by...

"Nodes at 0 and 1 have no associated membrane or cytoplasm, and v at those locations is calculated as the weighted average of v at adjacent internal nodes." What if a section does not have two adjacent nodes, e.g. last node of a cable. In that case what happens to the end? Its potential be...

Hi all,
I would like to ask what type of boundary conditions NEURON applies. If for example, a single section is created, how are its 0 and 1 ends terminated?

Thank you in advance.

"Code:
dend { iax = ( v(0.01) - v(0) ) / ri(0.01) }

This assumes that dend.nseg < 100. "

What if section dend has nseg=1? Is the above formula still valid?

Hi all,
I am interested in the longitudinal current that flows intracellularly through the Ra resistors in a cell model. Does NEURON keep this current in a variable accessible to the user? If not is there an easy way to calculate this current?

Thanks.

Hi, I am trying to simulate extracellular stimulation of a neuron using the extracellular mechanism and e_extracellular. I guess, in order to simulate cathodic stimulation, e_extracellular should have negative values and for anodic stimulation, e_extracellular should be positive. Is that correct? Be...

Hi all, I am trying to apply the extracellular mechanism to a reconstructed pyramidal cell available in MODELDB. I want to simulate voltage-controlled extracellular stimulation, so I am giving to e_extracellular potentials values that correspond to field potentials I have calculated using a Finite E...

Hi all, I was wondering whether there is a predefined procedure or mechanism in NEURON that calculates the firing threshold for a cell model, when intracellular stimulation of given pulse width is used. I guess one can implement a .hoc file that will run a bunch of simulations and will monitor excit...

Hi all, I am trying to understand how 3D morphological points for a given segment can be correlated with compartments of the segment. For example, if we have the following scenario create a access a pt3dclear() pt3dadd(x1, y1, z1, diam1) ... pt3dadd(x10,y10, z10, diam10) In that case segment "a...

Apart from moving a reconstructed cell is there an easy way to rotate it in 3D space?

Thanks

So, the value of the transverse conductors will vary depending on the area of the respective segments. In my model of myelinated fiber, nodes for example have smaller areas than internodes, so the transverse conductors that correspond to nodes will have a smaller value than the ones that correspond ...

Hi all, I am trying to use the linear mechanism in order to model ephaptic interactions. According to the online reference, arguments of the linear mechanism are in units/cm2. For example, the conductance vector g has dimensions of S/cm2. In my case, this vector represents the transverse conductance...

Hi, I am trying to define a procedure in a hoc file that will take as a parameter section names. E.g. If I have a soma and an axon section I would like to have something like that: foo() { $1.L=10 ... } foo(soma) Is there a way to do that? I tried to do the above implementation, but the compiler ret...