www.neuron.yale.edu

You're quite welcome. Sooner or later, you probably would have figured this out
on your own anyway.

nrn/lib/hoc/thresh.hoc implements a binary search that can be quite useful for finding spike threhold. Read the source code to understand the details, but basically it adjusts a user-specified variable and uses an APCount to detect the spike. Here's an example of its use: 1. Create a file that conta...

I'm trying to plot the individual contributions of an hh channel model and an m-current channel to the total k current vs time. For the 19th PY cell, using the Plot what? tool, the total k current might be "PY[14].soma[0].ik(0.5)." True. Assuming that the suffix for the NMODL M-current ch...

CPU usage (as reported by the Task Manager) never gets higher than 55-60%. NEURON isn't the only program that is running. What else is Windows doing? If you want the CPU to spend more time on a particular program, you have to increase that program's priority. Presumably Windows allows you to specif...

Permeability of a patch of membrane is the product of the membrane area, channel density,
and permeability of a single channel. Channel density and single channel permeability can
be collapsed into a single value which has units of "permeability density", i.e.
permeability/area.

Conductance density is in units of conductance/area, so total conductance is the product of area and conductance density. To find the number of channels required to produce that total conductance, divide total conductance by the conductance per channel. The arithmetic is similar if you are dealing w...

I should point out that Bill Lytton has posted the source code for the models and exercises
in his book "From Computer to Brain" on NEURON's WWW site--see
http://www.neuron.yale.edu/fctb/
A pdf that contains a list of errata is also downloadable from that URL.

"Neural computation" covers a wide range of activities. At one extreme are people who spend all their time working on theory that draws a few inspirations from experimental neuroscience. At the other extreme are experimentalists who use computational modeling as just another research tool,...

There are several errors in the USEION statement, but It's not clear to me why you are bothering with a USEION statement at all. Is your model going to include an accumulation mechanism for this new ionic species? Are there other mechanisms that will affect, or be affected by, the concentration or e...

The agenda for the 2006 NEURON Simulator Meeting continues to grow. Here are three more reasons to join us at UT Austin, May 5-7-- Discussion: "NEURON: quo vadis?" Moderator: Michael Hines The agenda is to discuss future directions for NEURON, in order to help it continue to evolve to meet...

The registration deadline (April 21) for the 2006 NEURON Simulator Meeting is rapidly approaching! For more information see http://www.utexas.edu/neuroscience/NEURON2006/nsm2006.html One of the featured speakers is Michael Hines, who will present a tutorial and run a workshop on using NEURON to impl...

Is a java runtime machine neccessary for loading the nrnmech.dll?

No.

Additionally i have to say that the java runtime environment doesn't work correctly on my computer

Do you need to use Java? Nothing in NEURON requires Java.

Actually the false assumption was that the MRF's generator was plotting the full time course of the fitted variable. The simulated "variable to fit" is captured with Vector.record. After a run, this recording is interpolated to find the values of the "variable to fit" at the same...

Have you tried deleting nrnmech.dll and running mknrndll again?

Does point (x1,y1,z1) correspond to the "0" end of the segment and (x10,y10,z10) correspond to the "1" end of the segment? First a word about terminology. Segments do not have 0 or 1 ends. In your code example, a is a section, and its 0 and 1 ends are at x1,y1,z1 and x10,y10,z10...