| ... | ... | @@ -2,6 +2,8 @@ | 
              
                    | 2 | 2 |  | 
              
                    | 3 | 3 | * ((( ====  **[[Beginner >>||anchor = "HBeginner-1"]]** ==== ))) | 
              
                    | 4 | 4 |  | 
              
                    |  | 5 | +* ((( ==== **[[Advanced >>||anchor = "HAdvanced-1"]]** ==== ))) | 
              
                    |  | 6 | + | 
              
                    | 5 | 5 | === **Beginner** === | 
              
                    | 6 | 6 |  | 
              
                    | 7 | 7 | === [[A NEURON Programming Tutorial - part C>>http://web.mit.edu/neuron_v7.4/nrntuthtml/tutorial/tutC.html||rel=" noopener noreferrer" target="_blank"]] === | 
                      
        | ... | ... | @@ -50,4 +50,59 @@ | 
              
                    | 50 | 50 | **Level**: beginner(%%)  **Type**: user documentation | 
              
                    | 51 | 51 |  | 
              
                    | 52 | 52 | After this tutorial, students will be able to save data from the simulations and methods for increasing simulation speed. | 
              
                    |  | 55 | +=== **Advanced** === | 
              
                    | 53 | 53 |  | 
              
                    |  | 57 | +=== [[Reaction-Diffusion – Radial Diffusion>>https://neuron.yale.edu/neuron/docs/radial-diffusion||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 58 | + | 
              
                    |  | 59 | +**Level**: advanced(%%)  **Type**: - | 
              
                    |  | 60 | + | 
              
                    |  | 61 | +Using NEURON Radial diffusion can be implemented in rxd using multicompartment reactions. By creating a series of shells and borders with reactions between them dependent the diffusion coefficient. | 
              
                    |  | 62 | +=== [[Reaction-Diffusion Example – Calcium Wave>>https://neuron.yale.edu/neuron/docs/reaction-diffusion-calcium-wave||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 63 | + | 
              
                    |  | 64 | +**Level**: advanced(%%)  **Type**: interactive tutorial | 
              
                    |  | 65 | + | 
              
                    |  | 66 | +The model presented in this tutorial generates Ca2+ waves and is a simplification of the model we used in Neymotin et al., 2015. | 
              
                    |  | 67 | +=== [[Reaction-Diffusion – 3D/Hybrid Intracellular Tutorial>>https://neuron.yale.edu/neuron/docs/3dhybrid-intracellular-tutorial||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 68 | + | 
              
                    |  | 69 | +**Level**: advanced(%%)  **Type**: interactive tutorial | 
              
                    |  | 70 | + | 
              
                    |  | 71 | +This tutorial provides an overview of how to set up a simple travelling wave in both cases. | 
              
                    |  | 72 | +=== [[Reaction-Diffusion – Initialization strategies>>https://neuron.yale.edu/neuron/docs/initialization-strategies||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 73 | + | 
              
                    |  | 74 | +**Level**: advanced(%%)  **Type**: interactive tutorial | 
              
                    |  | 75 | + | 
              
                    |  | 76 | +In this tutorial you will learn how to implement cell signalling function in the reaction-diffusion system by characterising your problems by the answers to three questions: (1) Where do the dynamics occur, (2) Who are the actors, and (3) How do they interact? | 
              
                    |  | 77 | +=== [[Ball and Stick model part 3>>https://neuron.yale.edu/neuron/docs/ball-and-stick-model-part-3||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 78 | + | 
              
                    |  | 79 | +**Level**: advanced(%%)  **Type**: user documentation | 
              
                    |  | 80 | + | 
              
                    |  | 81 | +=== [[Using the CellBuilder – Introduction>>https://neuron.yale.edu/neuron/static/docs/cbtut/main.html||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 82 | + | 
              
                    |  | 83 | +**Level**: advanced(%%)  **Type**: interactive tutorial | 
              
                    |  | 84 | + | 
              
                    |  | 85 | +The following tutorials show how to use the CellBuilder, a powerful and convenient tool for constructing and managing models of individual neurons. It breaks the job of model specification into a sequence of tasks: | 
              
                    |  | 86 | +1. Setting up model topology (branching pattern). | 
              
                    |  | 87 | +2. Grouping sections with shared properties into subsets. | 
              
                    |  | 88 | +3. Assigning geometric properties (length, diameter) to subsets or individual sections, and specifying a discretization strategy (i.e. how to set nseg). | 
              
                    |  | 89 | +4. Assigning biophysical properties (Ra, cm, ion channels, buffers, pumps, etc.) to subsets or individual sections. | 
              
                    |  | 90 | +=== [[Using Import3D – Exploring morphometric data and fixing problems>>https://neuron.yale.edu/neuron/docs/import3d/fix_problems||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 91 | + | 
              
                    |  | 92 | +**Level**: advanced(%%)  **Type**: user documentation | 
              
                    |  | 93 | + | 
              
                    |  | 94 | +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 how to fix problems in your morphometric data. | 
              
                    |  | 95 | +=== [[Randomness in NEURON models– The solution>>https://neuron.yale.edu/neuron/docs/solution||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 96 | + | 
              
                    |  | 97 | +**Level**: advanced(%%)  **Type**: user documentation | 
              
                    |  | 98 | + | 
              
                    |  | 99 | +In this part of the tutorial we will show you how to give NetStim its own random number generator. | 
              
                    |  | 100 | +=== [[Segmentation intro: Dealing with simulations that generate a lot of data>>https://neuron.yale.edu/neuron/docs/dealing-simulations-generate-lot-data||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 101 | + | 
              
                    |  | 102 | +**Level**: advanced(%%)  **Type**: user documentation | 
              
                    |  | 103 | + | 
              
                    |  | 104 | +How to deal with simulations that generate a lot of data that must be saved? We will showcase different approaches. | 
              
                    |  | 105 | +=== [[Using the Channel Builder – Creating a channel from an HH-style specification>>https://neuron.yale.edu/neuron/static/docs/chanlbild/hhstyle/outline.html||rel=" noopener noreferrer" target="_blank"]] === | 
              
                    |  | 106 | + | 
              
                    |  | 107 | +**Level**: advanced(%%)  **Type**: interactive tutorial | 
              
                    |  | 108 | + | 
              
                    |  | 109 | +Our goal is to implement a new voltage-gated macroscopic current whose properties are described by HH-style equations. | 
              
                    |  | 110 | + |