NetPyNE 2021 Online Course ========================== This courses introduces using NEURON via `NetPyNE `_, a tool designed to simplify the construction, simulation, and analysis of network models. The first half of the course is mostly about NEURON, neuron theory, and relevant tools. NetPyNE-specific content begins in the second half of the course. For those who prefer, this video series may also be accessed as a `YouTube playlist `_. The playlist also includes guest speakers describing their research projects using NetPyNE and student project presentations. Course introduction ------------------- .. raw:: html Single neuron theory I ---------------------- Bill Lytton, presenting. .. raw:: html General tech basics ------------------- Topics: - introduction to the terminal - use of Google Colab and Jupyter notebooks .. raw:: html NEURON basics ------------- Lecture ####### .. raw:: html Exercises ######### To facilitate interaction for the exercises, we split the class into two groups, taught by different people. The exercises are the same, however the discussions and details of the approaches vary. Group 1 ~~~~~~~ .. raw:: html Group 2 ~~~~~~~ .. raw:: html Single neuron theory II ----------------------- .. raw:: html .. _netpyne_neuron_rxd_video: NEURON RxD ---------- Lecture ####### .. raw:: html Exercises ######### To facilitate interaction for the exercises, we split the class into two groups, taught by different people. The exercises are the same, however the discussions and details of the approaches vary. The three exercises: - `pure diffusion `_ - `regenerative signaling `_ - `Hodgkin-Huxley, concentrations, and homeostasis `_ Group 1 ~~~~~~~ .. raw:: html Group 2 ~~~~~~~ .. raw:: html Network and synapse theory -------------------------- Lecture ####### .. raw:: html Networks in NEURON exercises ############################ .. raw:: html NetPyNE GUI ----------- Introduction ############ .. raw:: html Tutorials 1 and 2: Spinal cord ############################## .. raw:: html Tutorial 3 ########## .. raw:: html Tutorial 2: spinal cord ####################### .. raw:: html Exercises ######### .. raw:: html Tutorials 3-5 ############# .. raw:: html Tutorials 6 and 9 ################# .. raw:: html NetPyNE analysis and plotting ----------------------------- .. raw:: html NetPyNE cell imports -------------------- Lecture ####### .. raw:: html Hands-on ######## .. raw:: html Building data driven multiscale models -------------------------------------- .. raw:: html Parameter exploration and optimization -------------------------------------- Part 1 ###### .. raw:: html Part 2 ###### .. raw:: html NetPyNE and RxD --------------- .. raw:: html NetPyNE hands on batches ------------------------ .. raw:: html NetPyNE virtual environments on mac and linux --------------------------------------------- .. raw:: html