Search found 12 matches
- Tue Feb 13, 2018 3:01 am
- Forum: NEURON + Python
- Topic: Updating extracellular values for all segments!
- Replies: 7
- Views: 7433
Re: Updating extracellular values for all segments!
That's true. Thank you for your comment and help Dr. Carnevale.
- Mon Feb 12, 2018 1:41 pm
- Forum: NEURON + Python
- Topic: Updating extracellular values for all segments!
- Replies: 7
- Views: 7433
Re: Updating extracellular values for all segments!
Thank you Dr. Hines,
It works perfectly now! Thank you for your time and help!
Side note to other Neuron users: You may need to use "mknrndll" tool to recompile some of your mod files before you can run your models with the new version of Neruon!
It works perfectly now! Thank you for your time and help!
Side note to other Neuron users: You may need to use "mknrndll" tool to recompile some of your mod files before you can run your models with the new version of Neruon!
- Sun Feb 11, 2018 9:00 pm
- Forum: NEURON + Python
- Topic: Updating extracellular values for all segments!
- Replies: 7
- Views: 7433
Re: Updating extracellular values for all segments!
Great! Thank you Dr. Hines for the fix.
Just a novice question. How should I update this NEURON file on a MAC? Should I uninstall Neuron and reinstall it with the MAC installer tool?
Is the NEURON installer package also updated?
Thank you!
Just a novice question. How should I update this NEURON file on a MAC? Should I uninstall Neuron and reinstall it with the MAC installer tool?
Is the NEURON installer package also updated?
Thank you!
- Sat Feb 10, 2018 7:21 pm
- Forum: NEURON + Python
- Topic: Updating extracellular values for all segments!
- Replies: 7
- Views: 7433
Re: Updating extracellular values for all segments!
I should also mention that I could set the xraxial values for each segment individually in a for loop: h.finitialize() for seg in Soma: seg.xraxial[0]=100 print(seg.xraxial[0], seg.xraxial[1], seg.diam) h.psection(sec=Soma) and I get the following results: 100.0 1000000000.0 500.0 100.0 1000000000.0...
- Sat Feb 10, 2018 6:52 pm
- Forum: NEURON + Python
- Topic: Updating extracellular values for all segments!
- Replies: 7
- Views: 7433
Updating extracellular values for all segments!
Dear Ted, I created a section in Python with 7 segments and inserted an extracellular mechanism. Soma=h.Section() Soma.nseg=7 Soma.insert('extracellular') Soma.xraxial[0]=100 Soma.xg[0]=1e10 Soma.xc[0]=0 However, when I print xraxial values for each segment, I see that only one segment's xraxial val...
- Sun Nov 06, 2016 6:04 pm
- Forum: Getting started
- Topic: How to make multiple segments with different length?
- Replies: 5
- Views: 9596
Re: How to make multiple segments with different length?
Dear Ted, Thank you for taking the time and helping me. Don't. Enforce a nonzero minimum length. So, let's assume that I have a long axon and I have a section (Length=L) in somewhere in the middle of my axonal model that I want to split it into two smaller sections. 1- All properties of these two se...
- Sat Nov 05, 2016 8:20 pm
- Forum: Getting started
- Topic: How to make multiple segments with different length?
- Replies: 5
- Views: 9596
Re: How to make multiple segments with different length?
Dear Ted, Thanks for your reply and help. I really appreciate it. However, I have a question regarding splitting my section into different sections. In my application, my initial intent was to change the diameter (and some other range variables) of part of a section(s) in my axonal model based on my...
- Fri Nov 04, 2016 7:18 pm
- Forum: Getting started
- Topic: How to make multiple segments with different length?
- Replies: 5
- Views: 9596
How to make multiple segments with different length?
Dear Ted, I was wondering if it is possible to have a section with multiple segments such that the length of each segment is not equal to the other segments's length? For example, let's assume that I have an internode section in my neuron model. Its length is 100um. I would like to have 5 segments. ...
- Wed Oct 21, 2015 2:18 pm
- Forum: Getting started
- Topic: what is the minimum value that can be assigned to a section
- Replies: 3
- Views: 7158
Re: what is the minimum value that can be assigned to a sect
Dear Dr. Carnevale, Thank you very much for your reply. Here I explain my rational for using this method and I would appreciate it if you could let me know which part is wrong: Each section is a cylinder in my model. As far as I know, the surface area in terminal nodes (x=0,1) is zero. Therefore, th...
- Tue Oct 20, 2015 10:01 pm
- Forum: Getting started
- Topic: what is the minimum value that can be assigned to a section
- Replies: 3
- Views: 7158
what is the minimum value that can be assigned to a section
Dears, I was wondering what is the minimum value that can be assigned to a section in NEURON without inducing computational problems? I want to model a kind of injury in neurons. I have a model of an axon with three (types) sections in internodal regions like this: Type 1 : A section with user-defin...
- Wed Aug 20, 2014 11:01 pm
- Forum: Getting started
- Topic: Recording Ionic concentrations
- Replies: 1
- Views: 3144
Recording Ionic concentrations
Dear Ted, I have a model of an axon with some membrane mechanisms (NMODL files of Fast K, Na and ...) added to that. In every NMODL file, I use "USEION x READ xi,xo,enx WRITE ix " to actually force NEURON keep track of ionic concentrations (xi,xo). These mechanisms are added to different s...
- Mon Aug 11, 2014 5:11 pm
- Forum: Getting started
- Topic: Recording membrane voltage along an axon
- Replies: 1
- Views: 2958
Recording membrane voltage along an axon
Dear Ted, I have made a simple model of an axon with 21 nodes. I use Clamp() to stimulate the first node of my axon. All nodes (and the same idea for internode) have similar properties (Passive + HH mechanisms). I recorded membrane voltage at all nodes (node[1].v(0.5),node[2].v(0.5),...). Surprising...