Changes for page BluePyOpt

Last modified by abonard on 2025/04/10 15:12

From version 17.1
edited by abonard
on 2025/04/10 15:11
Change comment: There is no comment for this version
To version 23.1
edited by abonard
on 2025/04/10 15:11
Change comment: There is no comment for this version

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4 4  
5 5  * ((( ==== **[[Intermediate >>||anchor = "HIntermediate-1"]]** ==== )))
6 6  
7 +* ((( ==== **[[Advanced >>||anchor = "HAdvanced-1"]]** ==== )))
8 +
7 7  === **Beginner** ===
8 8  
9 9  === [[Creating a simple cell optimisation>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/simplecell/simplecell.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
... ... @@ -28,4 +28,36 @@
28 28  **Level**: intermediate(%%) **Type**: interactive tutorial
29 29  
30 30  This notebook will explain how to set up an optimisation that uses metaparameters (parameters that control other parameters)
33 +=== [[Setup of a cell model with multi electrode simulation for local field potential recording>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/l5pc_lfpy/L5PC_LFPy.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
31 31  
35 +**Level**: intermediate(%%) **Type**: interactive tutorial
36 +
37 +This notebook will demonstrate how to instantiate a cell model and evaluator that include local field potential (LFP) computation and its recording using a simulated multi electrode array (MEA).
38 +=== [[Exporting a cell in the neuroml format and running it>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/neuroml/neuroml.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
39 +
40 +**Level**: intermediate(%%) **Type**: interactive tutorial
41 +
42 +In this tutorial we will go over how to export a cell to neuroml, create a LEMS simulation able to run the neuroml cell and then how to run the simulation.
43 +=== [[Tsodyks-Markram model of short-term synaptic plasticity>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/tsodyksmarkramstp/tsodyksmarkramstp.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
44 +
45 +**Level**: intermediate(%%) **Type**: interactive tutorial
46 +
47 +In this notebook we demonstrate how to fit the parameters of the Tsodyks-Markram model to a given in vitro somatic recording. The in vitro trace used here shows a typical L5TTPC-L5TTPC depressing connection, kindly provided by Rodrigo Perin (EPFL).
48 +=== [[Optimization of burst and tonic firing in thalamo-cortical neurons>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/thalamocortical-cell/thalamocortical-cell_opt.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
49 +
50 +**Level**: intermediate(%%) **Type**: interactive tutorial
51 +
52 +In this tutorial we will go over how to set up the cell model and the cell evaluator, run an optimisation and how to analyse optimisation results.
53 +=== **Advanced** ===
54 +
55 +=== [[Optimisation of a Neocortical Layer 5 Pyramidal Cell>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/l5pc/L5PC.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
56 +
57 +**Level**: advanced(%%) **Type**: interactive tutorial
58 +
59 +This notebook shows you how to optimise the maximal conductance of Neocortical Layer 5 Pyramidal Cell as used in Markram et al. 2015.
60 +=== [[Optimisation of a Neocortical Layer 5 Pyramidal Cell in Arbor>>https://github.com/BlueBrain/BluePyOpt/blob/master/examples/l5pc/L5PC_arbor.ipynb||rel=" noopener noreferrer" target="_blank"]] ===
61 +
62 +**Level**: advanced(%%) **Type**: interactive tutorial
63 +
64 +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.
65 +