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Retinal Stimulation Modeling Environment
  • Retinal Stimulation Modeling Environment (RSME)
  • Preliminaries
    • Python
    • NEURON
    • Systems Biology Markup Language
    • RSME and Model initialization
  • Model specification
    • Meta-parameters
    • Morphology Description
    • Network Description
    • Visual Stimulation
    • Biophysical Description
  • Visual Stimulation
  • Single SAC model
    • Model Initialization
    • Model Visualization
    • Model Simulation
  • SAC plexus model
    • Before we begin
    • Model Initialization and Visualization
    • Model Simulation
  • SAC-DSGC network
    • Model initialization and visualization
    • Model Simulation
  • Logger
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  1. SAC plexus model

Before we begin

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Last updated 3 years ago

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NEURON is using .mod files to specify channels and dynamics. You can read about .mod files and how they are created and specified in:

RSME is using various membrane mechanisms. One of them is GradSyn, which we used to model SAC-SAC synapses. You can download RSME's .mod files in:

Unzip the mods directory to your project folder. Now you will have to compile the files to work with NEURON. To do so, go to the Terminal, get into your project folder, and enter:

nrnivmodl \mods

It will create a new folder (in Mac in will be x86_64), in which the compiled C files.

Compiling these files is important. You will not be able to proceed with this example without it.

NMODL — NEURON 7.7 documentation
27KB
mods.zip
archive