Changes for page Neuron

Last modified by abonard on 2025/04/10 15:17

From version 53.1
edited by abonard
on 2025/04/10 15:08
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To version 63.1
edited by abonard
on 2025/04/10 15:08
Change comment: There is no comment for this version

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... ... @@ -257,4 +257,53 @@
257 257  **Level**: advanced(%%) **Type**: user documentation
258 258  
259 259  The tutorial will show you how to declare important constants (model parameters and simulation parameters), load files that other stuff will depend on, create the model itself (just a collection of cells that spike at random times), specify instrumentation (in this case, recording of spike times), specify simulation control and execute one or more simulations with various model parameters in the source code.
260 +=== [[Using the Channel Builder – Creating a model of stochastic channel gating>>https://neuron.yale.edu/neuron/static/docs/chanlbild/stochastic/outline.html||rel=" noopener noreferrer" target="_blank"]] ===
260 260  
262 +**Level**: advanced(%%) **Type**: interactive tutorial
263 +
264 +Given a Channel Builder that implements a deterministic channel specified by a kinetic scheme, we create a new one that implements stochastic gating.
265 +=== [[Randomness in NEURON models - How to generate independent random spike streams>>https://neuron.yale.edu/neuron/docs/how-generate-independent-random-spike-streams||rel=" noopener noreferrer" target="_blank"]] ===
266 +
267 +**Level**: advanced(%%) **Type**: user documentation
268 +
269 +Learn how to generate random spike streams with the use of NetStim.
270 +=== [[Using Import3D – Reading a morphometric data file and converting it to a NEURON model>>https://neuron.yale.edu/neuron/docs/import3d/read_data||rel=" noopener noreferrer" target="_blank"]] ===
271 +
272 +**Level**: advanced(%%) **Type**: user documentation
273 +
274 +Import3D tool can be used to translate common varieties of cellular morphometric data into a CellBuilder that specifies the anatomical properties of a model neuron. This Tutorial will guide you through bringing up an Import3d tool, then specifying a file to be read and finally export the data as a NEURON model.
275 +=== [[Reaction-Diffusion – Varying initial concentrations and parameters>>https://neuron.yale.edu/neuron/docs/reaction-diffusion-varying-initial-concentrations-and-parameters||rel=" noopener noreferrer" target="_blank"]] ===
276 +
277 +**Level**: advanced(%%) **Type**: interactive tutorial
278 +
279 +This tutorial will show you how to manipulate the rxd.Species attribute to see how the choice of initial conditions affects the dynamics.
280 +=== [[Using the CellBuilder – Managing a model cell with complex anatomy>>https://neuron.yale.edu/neuron/static/docs/cbtut/pt3d/outline.html||rel=" noopener noreferrer" target="_blank"]] ===
281 +
282 +**Level**: advanced(%%) **Type**: interactive tutorial
283 +
284 +We use the CellBuilder to specify the spatial grid (nseg) and biophysical properties of a model based on detailed morphometric data.
285 +=== [[Using NEURON's Optimization Tools>>https://neuron.yale.edu/neuron/static/docs/optimiz/main.html||rel=" noopener noreferrer" target="_blank"]] ===
286 +
287 +**Level**: advanced(%%) **Type**: user documentation
288 +
289 +This collection of tutorials shows how to use NEURON's optimization tools. Before working through these tutorials, most readers should probably examine the on-line "Introduction to Optimization" http://neos-guide.org/content/optimization-introduction.
290 +=== [[Ball and Stick model part 1>>https://neuron.yale.edu/neuron/docs/ball-and-stick-model-part-1||rel=" noopener noreferrer" target="_blank"]] ===
291 +
292 +**Level**: advanced(%%) **Type**: user documentation
293 +
294 +=== [[Reaction-Diffusion – Extracellular Diffusion>>https://neuron.yale.edu/neuron/docs/extracellular-diffusion||rel=" noopener noreferrer" target="_blank"]] ===
295 +
296 +**Level**: advanced(%%) **Type**: interactive tutorial
297 +
298 +We have expanded the capabilities the NEURON reaction diffusion module to support a macroscopic model of the extracellular space. Here is brief a tutorial that provides an overview of the python interface.
299 +=== [[Segmenting a simulation of a model cell – 4. Reconstitute and verify the "complete" simulation results>>https://neuron.yale.edu/neuron/docs/4-reconstitute-and-verify-complete-simulation-results||rel=" noopener noreferrer" target="_blank"]] ===
300 +
301 +**Level**: advanced(%%) **Type**: user documentation
302 +
303 +=== [[Using the Network Builder – Tutorial 2: Making Hybrid Nets>>https://neuron.yale.edu/neuron/static/docs/netbuild/hybrid/outline.html||rel=" noopener noreferrer" target="_blank"]] ===
304 +
305 +**Level**: advanced(%%) **Type**: interactive tutorial
306 +
307 +In this tutorial you will learn how to define the types of cells, create each cell in the network and connect the cells (this includes specifying parameters such as delays and weights) . We'll use a pair of biophysical models for M and R, and a NetStim artificial neuron will provide the excitatory drive to M.
308 +In the end we will run a simulation and plot the input and output spike trains.
309 +