Search found 5981 matches

by ted
Tue Nov 16, 2021 12:01 pm
Forum: NEURON + Python
Topic: hh.mod + Python + membrane potential at several points of the soma
Replies: 5
Views: 764

Re: hh.mod + Python + membrane potential at several points of the soma

If I choose the different values of "soma.L" and "soma.diam " , the results are not the same as that in the calssical HH model. Are you asking a question, or just making a statement? The model created by the python code in your post doesn't have the same anatomical structure as ...
by ted
Tue Nov 16, 2021 11:48 am
Forum: Modeling networks
Topic: How to change runtime synaptic conductance?
Replies: 5
Views: 181

Re: How to change runtime synaptic conductance?

I need to apply synaptic delay for each up state of slow oscillation cycle. For example when I start simulation the first slow oscillation cycle will also starts and I want to to change synaptic conductance after 500 ms of slow oscillation cycle for example 2nd slow oscillation cycle start at t =15...
by ted
Tue Nov 16, 2021 11:11 am
Forum: NetPyNE
Topic: elaborate visualization of neuron morphologies and synapses
Replies: 8
Views: 226

Re: elaborate visualization of neuron morphologies and synapses

What about the Shape plot class's color and color_list methods?
by ted
Sun Nov 14, 2021 1:18 pm
Forum: NetPyNE
Topic: elaborate visualization of neuron morphologies and synapses
Replies: 8
Views: 226

Re: elaborate visualization of neuron morphologies and synapses

"Shape plots" (see the Programmer's Reference for documentation of the Shape and PlotShape classes) can be used to generate figures of parts of cells or any number of cells. These can be rendered by NEURON or by third-party Python libraries, e.g. matplotlib, plotly. To learn more, see Robe...
by ted
Fri Nov 12, 2021 5:09 pm
Forum: Modeling networks
Topic: How to model presynaptic voltage?
Replies: 7
Views: 128

Re: How to model presynaptic voltage?

Hmm, no NMODL code there, just python and xml. Or did I miss it? Was the above NMODL code machine-generated from xml?
by ted
Thu Nov 11, 2021 3:46 pm
Forum: Modeling networks
Topic: How to change runtime synaptic conductance?
Replies: 5
Views: 181

Re: How to change runtime synaptic conductance?

It's best not to change proc advance() or any other part of the standard run system to change parameters during a simulation. The safe and sure way to change parameters during a run is to use an FInitializeHandler. In the Hot tips area of the Forum look for How to change parameters during a simulati...
by ted
Wed Nov 10, 2021 5:07 pm
Forum: NEURON Announcements
Topic: NEURON-related presentations at the SFN 2021 annual meeting
Replies: 0
Views: 136

NEURON-related presentations at the SFN 2021 annual meeting

Want to see what others are doing with NEURON? Here's a list of NEURON-related presentations at the SFN 2021 annual meeting (you know, the one that was supposed to happen in Chicago . . . ) https://www.neuron.yale.edu/ftp/neuron/neuron_at_sfn2021.pdf We're sure that we have missed many other present...
by ted
Tue Nov 09, 2021 3:30 pm
Forum: Modeling networks
Topic: How to model presynaptic voltage?
Replies: 7
Views: 128

Re: How to model presynaptic voltage?

True, you definitely can't use event-driven synapses. Two more questions: Will you be driving the synapse with waveforms that come from electrical or optical recordings of presynaptic membrane potential? If such recordings are published, where would I find them? Is there a mathematical description o...
by ted
Mon Nov 08, 2021 11:20 pm
Forum: Modeling networks
Topic: How to model presynaptic voltage?
Replies: 7
Views: 128

Re: How to model presynaptic voltage?

Quite unique. Looks like something that was originally implemented for some non-NEURON simulation environment, or maybe some programming language. Was this originally published somewhere, or does it exist in some widely accessible code library? It must assume a very specific fixed time step, and it ...
by ted
Mon Nov 08, 2021 2:21 pm
Forum: Modeling networks
Topic: How to model presynaptic voltage?
Replies: 7
Views: 128

Re: How to model presynaptic voltage?

it has no NET_RECIEVE NET_RECEIVE. Isn't there an equivalent event-driven mechanism that you could use? How can I send an array (which contains the presynaptic potential of each time step) to the synapse (response to potential/voltage)? Are you inextricably committed to such an approach, i.e. havin...
by ted
Fri Nov 05, 2021 1:23 pm
Forum: Modeling networks
Topic: Spike-Time Dependent Plasticity in a parallel network
Replies: 4
Views: 7244

Re: Spike-Time Dependent Plasticity in a parallel network

tpre is the time of the most recent presynaptic spike.
tpost is the time of the most recent postsynaptic spike.
t is the current time.
by ted
Fri Nov 05, 2021 12:38 pm
Forum: General questions and discussions about computational neuroscience
Topic: Low Frequency Stimulation model
Replies: 3
Views: 223

Re: Low Frequency Stimulation model

whether the methods you prescribed would function for an AC electrode rather than a single direct current Think about the underlying physics and consider these questions: Given a conductive medium, what would make the electrical potential vary with position? What are the assumptions about the physi...
by ted
Thu Nov 04, 2021 1:21 pm
Forum: Other questions
Topic: Delaying channel blockers
Replies: 1
Views: 105

Re: Delaying channel blockers

There are several ways to implement a (computational) experimental protocol that involves parameter changes. One is to use the Vector class's play() method. Another is to use events to force parameter changes at specific times. See How to change parameters during a simulation in the Hot tips area of...
by ted
Thu Nov 04, 2021 12:10 pm
Forum: NEURON + Python
Topic: Time dependent NetCon weight
Replies: 1
Views: 104

Re: Time dependent NetCon weight

is it possible to implement a NetCon whose weight is time dependent. This is generally not what people want to do. Usually they want an event-driven point process whose response to an event will vary from event to event. The most typical case is synaptic plasticity, e.g. short term synaptic facilit...
by ted
Wed Nov 03, 2021 2:09 pm
Forum: NEURON hacks
Topic: Complex presynaptic cell
Replies: 3
Views: 225

Re: Complex presynaptic cell

Does this pertain to the hoc code used in your other post "added a synapse with python"