Search found 6290 matches

by ted
Wed May 03, 2006 6:00 pm
Forum: Modeling networks
Topic: Hi i am a new user
Replies: 1
Views: 3863

Here are the most important chapters for what you want to know. Chapter 10 and 11 of The NEURON Book contain information that you will need to know to model networks. But before you read it, you should be familiar with the contents of chapters 5 and 6 (modeling individual cells). If you need to lear...
by ted
Wed May 03, 2006 5:55 pm
Forum: Getting started
Topic: how injection current to neuron cell
Replies: 3
Views: 3628

Excellent. The book is more up-to-date than that old article on the WWW site.
by ted
Wed May 03, 2006 5:20 pm
Forum: The GUI
Topic: Can I control a exp2syn in GUI?
Replies: 1
Views: 4396

You can use a Point Process Manager to manage an ExpSyn or Exp2Syn, but you will need to write some hoc code to send events to the synaptic mechanism. Example: suppose the Point Process Manager tells you that your Exp2Syn is called Exp2Syn[0]. Then you need some code that creates a NetStim, and a Ne...
by ted
Wed May 03, 2006 5:11 pm
Forum: Getting started
Topic: how injection current to neuron cell
Replies: 3
Views: 3628

Use an IClamp. Read about Point Processes in chapter 5 of The NEURON Book, or at
least read
Hines, M.L. and Carnevale, N.T.
The NEURON simulation environment.
Neural Computation 9:1179-1209, 1997
which you will find here
http://www.neuron.yale.edu/neuron/bib/nrnpubs.html
by ted
Wed May 03, 2006 8:37 am
Forum: Modeling networks
Topic: Attaching a synapse changes cell response in Network Builder
Replies: 5
Views: 7337

Zip up the hoc, ses, and mod files necessary to reproduce the problem
and send them to me
ted dot carnevale at yale dot edu
and I'll try to diagnose it and tell you how to fix it.
by ted
Tue May 02, 2006 2:09 pm
Forum: Modeling networks
Topic: Attaching a synapse changes cell response in Network Builder
Replies: 5
Views: 7337

Try the latest alpha version--go to
http://www.neuron.yale.edu/neuron/install/install.html
then click on the link
Snapshots of alpha versions
and select the appropriate installer for your OS. Let me know if that fixes the problem.
by ted
Tue May 02, 2006 8:36 am
Forum: The GUI
Topic: dropdown menu
Replies: 4
Views: 6411

AFAIK only the NEURON Main Menu toolbar offers dropdown menus.
by ted
Tue May 02, 2006 8:35 am
Forum: Modeling networks
Topic: Attaching a synapse changes cell response in Network Builder
Replies: 5
Views: 7337

Haven't seen this happen before. Maybe you have uncovered a bug. What version of
NEURON are you using?
by ted
Tue May 02, 2006 8:31 am
Forum: Adding new mechanisms and functions to NEURON
Topic: How to plot the variables in pointprocesses?
Replies: 1
Views: 3039

Suffix notation varname_mechanismname is only for distributed mechanisms. Point processes are class definitions, and individual instances of a point process use dot notaion objrefname.varname to access parameters and variables. Read chapter 5 of The NEURON Book, or at least read Hines, M.L. and Carn...
by ted
Fri Apr 28, 2006 9:42 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: calcium dependent inactivation function
Replies: 13
Views: 11787

Sorry I didn't examine the code you posted on April 17 in any detail prior to today. There were far more fundamental issues at hand then, e.g. the form of the mass balance equation for calcium, whether it made sense to split the intracellular pool of calcium into different subsets according to which...
by ted
Fri Apr 28, 2006 8:09 pm
Forum: NEURON + Python
Topic: possible section syntax
Replies: 10
Views: 12066

Re: Assigning to multiple segments at once

Going a bit further, it might also be nice to be able to do: dlist = (0.1,0.2,0.3,0.4,0.2) soma.diam = dlist which would be equivalent to: for i in range(soma.nseg): soma.segments[i].diam = dlist[i] Would this syntax produce the following relationship between nseg and the variation of diam along th...
by ted
Fri Apr 28, 2006 7:58 pm
Forum: Getting started
Topic: Cathodic and anodic extracellular stimulation
Replies: 1
Views: 4374

Re: Cathodic and anodic extracellular stimulation

ssothro wrote:in order to simulate cathodic stimulation, e_extracellular should have negative values and for anodic stimulation, e_extracellular should be positive.
True.
by ted
Thu Apr 27, 2006 11:14 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Problem in opening channel builder .ses files
Replies: 4
Views: 4563

I was able to reproduce the problem with 5.8.88. It was fixed in the alpha version I picked up from the CVS repository late last week. I see that a new set of alpha version installers is now available; why don't you get one of those from http://www.neuron.yale.edu/ftp/neuron/versions/alpha/ and see ...
by ted
Thu Apr 27, 2006 10:05 am
Forum: Adding new mechanisms and functions to NEURON
Topic: Problem in opening channel builder .ses files
Replies: 4
Views: 4563

You may have run into a bug. If so, there is a possibility that it has already been
fixed. What version of NEURON are you using?
by ted
Thu Apr 27, 2006 9:55 am
Forum: Adding new mechanisms and functions to NEURON
Topic: How does NEURON calculate the membrane potential?
Replies: 3
Views: 9672

Units

See this item
What units does NEURON use for current, concentration, etc.?
in the FAQ list
http://www.neuron.yale.edu/neuron/faq/general-questions