Last modified by jfioril1 on 2022/05/23 22:36
From version 25.1
edited by denker
on 2020/04/03 16:44
Change comment: There is no comment for this version
To version 33.1
edited by jurkusr
on 2020/04/03 17:35
Change comment: There is no comment for this version

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1 -XWiki.denker
1 +XWiki.jurkusr
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4 4  (((
5 5  = Multi-area Multi-sensory Representations in Freely Moving Rats =
6 6  
7 -Use Case SGA2-SP3-003: Analysis pipeline for representation and analysis of electrophysiological data
7 +**Use Case SGA2-SP3-003: Analysis pipeline for representation and analysis of electrophysiological data**
8 +
9 +To be discussed Author order, contributions,...:
10 +
11 +Experiments: Julien Fiorilli^^2^^
12 +
13 +Implementation: Regimantas Jurkus^^1^^, Julien Fiorilli^^2^^, Pietro Marchesi^^2^^, Thijs Ruikes^^2^^
14 +
15 +Lead: Michael Denker^^1^^, Sonja Grün^^1^^, Cyril Pennartz^^2^^
16 +
17 +,,1) Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA-Institute Brain Structure-Function Relationships (INM-10), Jülich Research Centre, Jülich, Germany,,
18 +
19 +,,2) Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands,,
8 8  )))
9 9  )))
10 10  
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17 17  A notebook that demonstrates how to apply the pipeline to a complex dataset.
18 18  \\The aim of this note-book is twofold. Firstly,we aim to demonstrate the advantage of a common and shared data representation format for a challenging and complex electrophysiology dataset. The second aim is to showcase the first part of a pipeline for analysing for population-level data, including parallel spiking activity, paired with and behavioural and cognitive state variables.
19 19  
20 -This notebook is aimed at experimental and computational neuroscientists interested in the usage of the Neo and Elephant tools in performing data analysis of spiking data.
32 +This Collab is aimed at experimental and computational neuroscientists interested in the usage of the Neo and Elephant tools in performing data analysis of spiking data.
21 21  
34 +== Executing the analysis notebook ==
35 +
36 +* **Copy the collab drive to your drive space**
37 +** Open the Drive from the left menu
38 +** Select "Demonstrator_Use_Case_SGA2-SP3-003.ipynb", the "Figures" folder, and the "Data" folder
39 +** Copy the selected items, and select the destination 'My Library' from the dropdown 'Other Libraries'
40 +
41 +* **Start a Jupyter Hub instance **
42 +In another browser, open [[https:~~/~~/lab.ebrains.eu>>url:https://lab.ebrains.eu]]
43 +
44 +* **Run the notebook**
45 +In the Jupyter Hub, navigate to `drive/My Libraries/My Library/Demonstrator_Use_Case_SGA2-SP3-003.ipynb`, and run the notebook.
46 +
47 +
22 22  == License (to discuss) ==
23 23  
24 24  All text and example data in this collab is licensed under Creative Commons CC-BY 4.0 license. Software code is licensed under a modified BSD license.