Last modified by jfioril1 on 2022/05/23 22:36
From version 85.1
edited by jfioril1
on 2020/05/08 17:43
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To version 65.1
edited by denker
on 2020/04/21 15:38
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1 -XWiki.jfioril1
1 +XWiki.denker
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4 4  (((
5 5  = Temporal Structure in Recorded Ensemble Activity =
6 6  
7 -**Contribution to Use Case SGA2-SP3-003: Pipeline for analyzing the temporal structure in recorded Ensemble Activity and related Systems Neuroscience data in association with behavior, cognitive processing and modeling**
7 +**Use Case SGA2-SP3-003: Pipeline for analyzing Temporal structure in recorded Ensemble Activity and related Systems Neuroscience data in association with behavior, cognitive processing and modeling**
8 8  
9 9  Experiments: Julien Fiorilli^^2^^
10 10  
11 11  Implementation: Regimantas Jurkus^^1^^, Julien Fiorilli^^2^^, Pietro Marchesi^^2^^, Thijs Ruikes^^2^^
12 12  
13 -Lead: Michael Denker^^1^^, Sonja Grün^^1,3^^, Cyriel Pennartz^^2^^
13 +Lead: Michael Denker^^1^^, Sonja Grün^^1^^, Cyriel Pennartz^^2^^
14 14  
15 15  ,,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,,
16 16  
17 17  ,,2) Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, Netherlands,,
18 -
19 -,,3) Theoretical Systems Neurobiology, RWTH Aachen University, Aachen, Germany,,
20 20  )))
21 21  )))
22 22  
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24 24  (((
25 25  (% class="col-xs-12 col-sm-8" %)
26 26  (((
27 -== Synopsis of this demonstration ==
25 +== Demonstration of the analysis of electrophysiological data ==
28 28  
29 -This notebook, aimed at experimental and computational neuroscientists, demonstrates the principles of performing analysis of activity data on a complex dataset using the Neo and Elephant tools. We demonstrate the advantage of a common and shared data representation format for a challenging and complex electrophysiology dataset. Also, we showcase the first part of a pipeline for analysing for population-level data, including parallel spiking activity, paired with behavioural and cognitive state variables.
27 +A notebook that demonstrates how to apply the pipeline to a complex dataset.
28 +\\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.
30 30  
31 -A detailed description is found in the interactive Jupyter notebook.
30 +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.
32 32  
33 33  == Executing the analysis notebook ==
34 34  
35 -- Users outside the HBP community can download access the notebook by opening: [[https:~~/~~/drive.ebrains.eu/d/26ee91ed433049278d0e/>>url:https://drive.ebrains.eu/d/26ee91ed433049278d0e/]]
36 -\\- Users that have an ebrains account can run the notebook on [[https:~~/~~/lab.ebrains.eu/>>url:https://lab.ebrains.eu/]]
37 -
38 38  * **Copy the collab drive to your drive space**
39 39  ** Open the Drive from the left menu
40 40  ** Select "Demonstrator_Use_Case_SGA2-SP3-003.ipynb", the "Figures" folder, and the "Data" folder
41 41  ** Copy the selected items, and select the destination 'My Library' from the dropdown 'Other Libraries'
42 -\\
38 +
43 43  * **Start a Jupyter Hub instance **
44 44  In another browser, open [[https:~~/~~/lab.ebrains.eu>>url:https://lab.ebrains.eu]]
45 45  
Collaboratory.Apps.Collab.Code.CollabClass[0]
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1 -Contribution to Use Case SGA2-SP3-003: Pipeline for analyzing Temporal structure in recorded Ensemble Activity and related Systems Neuroscience data in association with behavior, cognitive processing and modeling
1 +This collaboration space is created to showcase examples of the progress made for the SP3 Use Case 3, highlight the tools used and outline the next steps to be taken.
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