www.neuron.yale.edu

in addition to my previous question, I would like to recreate the visualization methods used by netpynne GUI. In the tutorials, they only refer to matplotlib examples however, I would like to use the tool on the graphical interface ideally. Any directions on how to find and install that visualizatio...

thanks. What about 3D markers? The example you sent, very useful, appears to work on 2D dendrites. How do I adjust this for 3D?

thank you this is useful for layer color-coding. I would still like to be able to color-code the different synapses (inhibitory-excitatory) or even from different presynaptic populations. I see that netpynne graphics do that on different examples. I am looking into those examples to see what graphic...

thank you Ted I am looking for a way to annotate 3D points with layer information, or a method for displaying layers as well as indicating different synapse types by e.g. different colors. I haven't been able to find a method that does that using matplotlib according to the Shape plot documentation....

hello I am looking for visualization tools of neural morphology to elaborately visualize the synapses on dendrites. I have noticed that NetPynne provides some pretty detailed visualizations of the cells and I was wondering what tools are used for that and/or whether NEURON provides any tools for ela...

thank you! As a follow-up, I am using a script of yours Ted, to interpolate over the swc points in a hoc file. The "def interplocs" below expects two arguments, I realize the sec refers to the section and locs to the pt3 points. How do I call this definition from a separate python script t...

Hello I have a file called pyrcellfile.hoc, which contains a hoc template that defines a cell class called PYR. I want to use a Python script to load and instantiate my hoc file. My python script, myscript.py, looks like his: from neuron import h h.load_file("pyrcellfile.hoc") newpyr = h.P...

thanks for this most didactic response. My apologies for what may seem like excessive pedantry, but in writing these entries I realize that they will also be read by others who may not have the same background or local resources as the person who asked the question in the first place. I recently bo...

Hello Following other posts on the forum, I want to silence my netstim at a certain time (400ms) during my simulation. To do this I set netcon.active(0), or I've also tried to do netcon.weight=0 according to https://www.neuron.yale.edu/phpBB/viewtopic.php?p=17875#p17875 . I have a very novice syntax...

thank you! I was originally under the impression that the hoc file relies on fewer mod files and not most of the box. I am getting a better sense of the model now. Regarding the same repository I downloaded the 39948 entry and tried to run the "izhi2004a.hoc" according to the README instru...

Hello NEURON team I want to instantiate the izhekevic neuron Izhi2003a.hoc attached, but I get the error: "Izhi2003a is not a template" I did some basic troubleshooting and I added "load_file("import3d.hoc") and load_file("nrngui.hoc")" at the beginning of the...

thank you, I believe I got it!

thank you Ted. I will work on your instructions.
If you could also point me to an example that would be really helpful.

thanks again,
Alexandra

Hello developers I have the following novice problem. I want to call a given cell template from a hoc script and then access the exact same instantiation of that cell from a different python script. I fall upon a couple of syntax errors as I try to do that and was hoping for some guidance. my hoc ce...

thanks Ted!