Search found 45 matches

by adamimos
Wed May 04, 2011 5:04 pm
Forum: Other questions
Topic: distributing mechanisms randomly
Replies: 12
Views: 3468

Re: distributing mechanisms randomly

I can post up some very messy code, which I'm sure is not efficient at all, but just to give an example of how one might distribute some synapses: objref synList ////////use: aSynapseList = distSyns(numberOfSynapses,listOfSections,gMax,reversalPotential) obfunc distSyns() { local totalSyns localobj ...
by adamimos
Mon May 02, 2011 8:13 pm
Forum: Other questions
Topic: distributing mechanisms randomly
Replies: 12
Views: 3468

Re: distributing mechanisms randomly

A related question: Now that I have a List with all the point processes, how do I mark them all on a ShapePlot?

Thanks again,
Adam
by adamimos
Mon May 02, 2011 2:09 pm
Forum: Other questions
Topic: distributing mechanisms randomly
Replies: 12
Views: 3468

Re: distributing mechanisms randomly

I have a somewhat complicated hoc object that allows you to place point processes with a probability that depends on the diameter and length of the segment within a section, and of the perpendicular distance of the segment to some plane, which could be the cell body layer. Please let me know if you...
by adamimos
Tue Apr 26, 2011 6:15 pm
Forum: Other questions
Topic: distributing mechanisms randomly
Replies: 12
Views: 3468

Re: distributing mechanisms randomly

What to do, and how to do it, depends on what kind of "mechanisms" you have in mind (density mechanisms vs. point processes), and your definition of "distribute randomly." yes, sorry, should've been more precise. point processes (let's say simple alpha synapses), and distributed randomly means that...
by adamimos
Mon Apr 25, 2011 5:54 pm
Forum: Other questions
Topic: distributing mechanisms randomly
Replies: 12
Views: 3468

distributing mechanisms randomly

Hello, I was wondering if there was a built-in way to distribute let's say 1000 mechanisms uniformly randomly through a dendritic tree (let's say through a sectionList). Otherwise I suppose the way to do it is to add up all the lengths, uniformly select 1000 numbers within the range of 0 to total le...
by adamimos
Wed Mar 30, 2011 1:10 pm
Forum: Other questions
Topic: Morphoelectrotonic Transform
Replies: 6
Views: 1390

Re: Morphoelectrotonic Transform

That is ugly. I'd suggest installing one of the 7.2 alphas, e.g. http://www.neuron.yale.edu/ftp/neuron/versions/alpha/nrn-7.2.alpha-445+-MacOSX10.4.11.dmg or, if you can compile from source code, then get the latest development code from the mercurial repository and build NEURON from that--see http...
by adamimos
Tue Mar 29, 2011 7:14 pm
Forum: Other questions
Topic: Morphoelectrotonic Transform
Replies: 6
Views: 1390

Re: Morphoelectrotonic Transform

the Impedence tools are great! Yes, they are. Is there a way to suppress output so I don't get those matrices when calling compute with the extended impedence calculation? I don't see anything like that. What OS and which version of NEURON are you using? I was wondering if I could find a reference ...
by adamimos
Tue Mar 29, 2011 6:10 pm
Forum: Other questions
Topic: Morphoelectrotonic Transform
Replies: 6
Views: 1390

Re: Morphoelectrotonic Transform

"Morphoelectrotonic"? Now _there's_ a 50 cent word if there ever was one. Maybe you are interested in the GUI's impedance tools, which use the electrotonic transformation to map between anatomical space, where the separation between points is measured in units of physical distance, to electrotonic ...
by adamimos
Mon Mar 28, 2011 4:26 pm
Forum: Other questions
Topic: Morphoelectrotonic Transform
Replies: 6
Views: 1390

Morphoelectrotonic Transform

Hello,

I saw in a few texts that there was at some point plans to make have METransform functionality in NEURON. I was wondering if that ever came to fruition, and if so, where I could find this.

Thanks,
Adam
by adamimos
Mon Mar 28, 2011 1:30 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: Uninserting mechanisms
Replies: 3
Views: 1161

Re: Uninserting mechanisms

thanks ted!
by adamimos
Thu Mar 24, 2011 9:50 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: Uninserting mechanisms
Replies: 3
Views: 1161

Uninserting mechanisms

Hi,

I was wondering what the most efficient way to uninsert all distributed AND point process mechanisms is. Relatedly, is there a way to print all distributed and point process mechanisms that are currently in the entire simulation?

Thanks
by adamimos
Fri Oct 29, 2010 12:25 pm
Forum: Other questions
Topic: Topology
Replies: 2
Views: 912

Re: Topology

thanks! just what i needed.
by adamimos
Thu Oct 28, 2010 9:22 pm
Forum: Other questions
Topic: Topology
Replies: 2
Views: 912

Topology

Hello, I am working with a complicated 3d model in NEURON, and I'd like to basically get an adjacency matrix of the neuron. Is there a function which does this? I know, for instance, that the topology() function has all of the information I want, I was just wondering if there was an easy way to outp...
by adamimos
Tue Mar 23, 2010 8:37 pm
Forum: NEURON + Python
Topic: infinite cable
Replies: 3
Views: 1438

Re: infinite cable

Break it into several different sections, and assign different values to nseg. For practical application, it is generally sufficient to use the d_lambda rule to assign a value to nseg. i should've thought of just connecting a bunch of sections with different applications. I am not familiar with the...
by adamimos
Tue Mar 23, 2010 3:11 pm
Forum: NEURON + Python
Topic: infinite cable
Replies: 3
Views: 1438

infinite cable

Hello, I'm trying to model (at a very simple level), just a passive infinite cable response to a short current injection. I can make the cable very long, which is fine, but then I also want the compartmentalization to be able to capture the dynamics (ie. I need it to be shorter than the electrotonic...