www.neuron.yale.edu

Posted: **Thu Feb 14, 2013 6:51 am**

Dear Forum,

I have imported (import3D) a reconstruction of a neuron.
Because the reconstruction had no soma I made one and I connected the emerged dendrites.
At the shape window, not all dendrites look connected to the neuron. When I call the topology function, the diagram is as it should be.
The signal is propagated through the seemingly unconnected dendrites.

Is there any need to take further action? How can I have something that will not only be right but look right?

Kind regards,
Eleftheria

Posted: **Thu Feb 14, 2013 9:59 am**

tcp wrote:Is there any need to take further action?

No. The facts that topology() shows the connections, and charge spreads throughout the cell, prove that the model is fully connected.

How can I have something that will not only be right but look right?

You might try eliminating any direct assignment to the soma's L or diam. Define its geometry with pt3d statements, and only with pt3d statements. Example: for a 10x10 um soma

Code: Select all

soma {
  pt3dadd( 0,0,0,10)
  pt3dadd(10,0,0,10)
}

Then make sure that all of the soma's child sections are connected to its 0 or 1 end, not to soma(0.5). Let me know if that helps.

Posted: **Sat Feb 16, 2013 3:19 pm**

Thanks Ted,
Geometries were already defined by pt3dadd statements and connected to soma(0) or soma(1).

Hmm, should I just carry on?

Best,
Eleftheria

Posted: **Sun Feb 17, 2013 11:14 am**

It's just a cosmetic problem. However, if this is an important issue for you, I will have to be able to reproduce the problem myself--which means you should send the necessary code in a zip file to ted dot carnevale at yale dot edu.

www.neuron.yale.edu

Dendrites that look not connected

Dendrites that look not connected

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Re: Dendrites that look not connected

Re: Dendrites that look not connected