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Changes for page Arbor

Last modified by abonard on 2025/06/13 16:05
From version 59.1
edited by abonard
on 2025/05/23 13:15
Change comment: There is no comment for this version
To version 95.1
edited by abonard
on 2025/06/13 16:05
Change comment: There is no comment for this version

Summary

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Content
... ... @@ -97,14 +97,4 @@
97 97  **Level**: advanced(%%) **Type**: interactive tutorial
98 98  
99 99  This notebook shows you how to optimise the maximal conductance of Neocortical Layer 5 Pyramidal Cell as used in Markram et al. 2015 using Arbor as the simulator.
100 -=== [[Extracellular signals (LFPykit)>>https://docs.arbor-sim.org/en/stable/tutorial/probe_lfpykit.html||rel=" noopener noreferrer" target="_blank"]] ===
101 101  
102 -**Level**: advanced(%%) **Type**: user documentation
103 -
104 -This tutorial will show you how to record transmembrane currents using arbor.cable_probe_total_current_cell and how to record stimulus currents using arbor.cable_probe_stimulus_current_cell. Later we will be using the arbor.place_pwlin API to map recorded transmembrane currents to extracellular potentials by deriving Arbor specific classes from LFPykit’s lfpykit.LineSourcePotential and lfpykit.CellGeometry.
105 -=== [[Simulating optimized cell models in Arbor and cross-validation with Neuron>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/l5pc/l5pc_validate_neuron_arbor.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
106 -
107 -**Level**: advanced(%%) **Type**: interactive tutorial
108 -
109 -This notebook demonstrates how to run a simulation of a simple single compartmental cell with fixed/optimized parameters in Arbor. We follow the standard BluePyOpt flow of setting up an electrophysiological experiment and export the cell model to a mixed JSON/ACC-format. We then cross-validate voltage traces obtained with Arbor with those from a Neuron simulation.
110 -