Search found 5785 matches

by ted
Thu Nov 17, 2005 11:25 am
Forum: Getting started
Topic: Using my own generated spike trains as input
Replies: 2
Views: 3931

Re: Using my own generated spike trains as input

I generated a set of spike trains in matlab. I want to "input" those spike trains to the dendrites of an L5 pyramidal model I found on modeldb. I found the following FAQ page section: http://www.neuron.yale.edu/neuron/faq#playevents. The answer to that particular faq was out of date--sorrry about t...
by ted
Fri Nov 11, 2005 11:56 pm
Forum: Other questions
Topic: NEURON models at SFN 2005 meeting
Replies: 3
Views: 5605

SFN 2005 "NEURON Itinerary"

See http://www.neuron.yale.edu/ftp/ted/neuron/sfn2005neuronitin.html Most, but not all of these, report work that appears to have been done with NEURON. Some are of interest to me for other reasons. Doubtless there are many other presentations that used NEURON, but which escaped my primitive search ...
by ted
Mon Nov 07, 2005 8:46 am
Forum: Getting started
Topic: could you give me an example!
Replies: 2
Views: 3783

Re: could you give me an example!

clould you give me a example of how do you hyperpolarized/ depolarized e.g, a soma (change the membrane potential) and at the same time you inject current? i'm sure it will be a combination of voltage clamp and current clamp Think like an experimentalist. Or ask one. The answer is: inject a steady ...
by ted
Sun Nov 06, 2005 11:19 am
Forum: Other questions
Topic: extracellular potentials
Replies: 2
Views: 5181

extracellular stimulation and recording

We're looking for an example of a NEURON model of an unmyelinated cable with an extracellular potential modeled. For example, an HH cable. We've found some relevant examples in the NEURON src files, but they assume (to use NEURON terminology) that nlayer=2. We basically want a simple example where ...
by ted
Sun Nov 06, 2005 10:32 am
Forum: Other questions
Topic: neuron 5.8 bug?
Replies: 2
Views: 3337

c:\tmp for NEURON 5.8

No, just a cygwin configuration problem. Far too tedious to explain beyond that.
The workaround, as you discovered, is to create a tmp directory in c:
Fixed in the latest alpha version for MSWin.
by ted
Thu Nov 03, 2005 9:20 pm
Forum: Other questions
Topic: plotting taus and steady-state gs
Replies: 2
Views: 4764

What is the Grapher, and how to use it?

Well, minf isn't a conductance, but nit-picking aside, here's how to examine the voltage- dependence of a mechanism. First the variable(s) you want to plot must be visible to hoc. This can be a problem if the mechanism of interest was implemented with NMODL. STATEs are automatically range variables,...
by ted
Thu Nov 03, 2005 7:49 pm
Forum: Other questions
Topic: Plotting vectors?
Replies: 4
Views: 5273

Well, the vector tvec is compose of time steps 0,5 1 Is there an explanation on the WWW of why numbers with a fractional part are written with , in some countries and . in others? Instead I get a toothsaw stimulus... that's why I tought I was getting interpolation between the time steps. Are you us...
by ted
Sat Oct 29, 2005 3:58 pm
Forum: Anatomically detailed models
Topic: Working with spines
Replies: 1
Views: 4598

Read about pt3dadd in the Programmer's Reference. Then forget about it. The only place you'll find geometry specs with negative diameters is in legacy code. This may have had some utility back in antediluvian times--imagine that you are manually entering morphometric data for a cell, and you want to...
by ted
Tue Oct 25, 2005 6:53 pm
Forum: General questions and discussions about computational neuroscience
Topic: SFN 2005 Itinerary Planner and Abstract Viewer
Replies: 1
Views: 4693

SFN 2005 Itinerary Planner and Abstract Viewer

1. Has anybody gotten this year's Itinerary Planner working under Linux?
2. Has anybody been able to select and copy text within the Itinerary
Planner or Abstract Viewer?
by ted
Tue Oct 25, 2005 6:47 pm
Forum: Modeling networks
Topic: Code for Lists of Synaptic Connections
Replies: 2
Views: 5058

Assuming you have a List of all cells in your network, why not do something like this: // allcells is a List of all cells in the net objref ncs_by_pre, ncs_by_post, tmplist ncs_by_pre = new List() ncs_by_post = new List() // element ii of ncs_by_pre will be a List of netcons whose source is allcells...
by ted
Tue Oct 25, 2005 10:51 am
Forum: Modeling networks
Topic: Do IFs need a section ?
Replies: 2
Views: 4646

Re: Do IFs need a section ?

Does the best solution consist in creating a "fake" section and building IF networks into it or did I misunderstood something ? For the present, every artificial cell is a point process and must be "hosted" by a section, even if that section is a "dummy section" with no significant membrane propert...
by ted
Sun Oct 23, 2005 7:01 pm
Forum: Other questions
Topic: NEURON models at SFN 2005 meeting
Replies: 3
Views: 5605

NEURON models at SFN 2005 meeting

I like to see who's doing what with NEURON at the SFN meetings, but it's pretty hard to guess which talks or posters are reporting work done with NEURON. If you have such a talk or poster, I'd really appreciate it if you would let me know. If you need a "data format," here's one: 612.6 F21 A.M.Hagen...
by ted
Sun Oct 23, 2005 12:41 pm
Forum: Anatomically detailed models
Topic: neurolucida file specification
Replies: 1
Views: 4144

swc isn't a NeuroLucida format. AFAIK it was developed in Dennis Turner's lab
at Duke. You might ask him, or just google the words
swc format
and see what you get.

If you want detailed info about a NeuroLucida file format, you might contact
MicroBrightField and ask them for it.
by ted
Fri Oct 21, 2005 12:16 pm
Forum: Other questions
Topic: Which is better to use Windows 98+ OR UNIX?
Replies: 1
Views: 2836

use whatever makes you more productive

As far as using NEURON itself is concerned, no significant difference. Differences emerge when you bump up against the strengths and weaknesses of the OS environment itself, or the familiarity of the user with a particular platform. Stick with Win 98 if that's what you are familiar with, don't have ...
by ted
Thu Oct 20, 2005 11:22 am
Forum: Getting started
Topic: Procedure error
Replies: 2
Views: 3503

Re: Procedure error

hoc's parser complains if a procedure contains too many lines of code. This is one aspect of hoc that could reasonably be called "a feature, not a bug" because it discourages the use of giant procedures, which are hard to develop and maintain. However, for this minor limitation of hoc to be a truly ...