Changes for page SGA2 SP3 UC002 KR3.2 - Slow Wave Analysis Pipeline
Last modified by robing on 2022/03/25 09:55
Summary
-
Page properties (1 modified, 0 added, 0 removed)
Details
- Page properties
-
- Content
-
... ... @@ -13,15 +13,19 @@ 13 13 ((( 14 14 (% class="col-xs-12 col-sm-8" %) 15 15 ((( 16 -= =Flexible workflows to generatemulti-scale analysisscenarios==16 += What can I find here? = 17 17 18 - 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.18 +... 19 19 20 += Who has access? = 21 + 22 +Describe the audience of this collab. 23 + 20 20 == Executing the pipeline == 21 21 22 22 [[image:pipeline_flowchart.png]] 23 23 24 -=== In the collab (beta) ===28 +=== in the collab (beta) === 25 25 26 26 * **Copy the collab drive to your drive space** 27 27 ** Open the Drive from the left menu ... ... @@ -29,8 +29,8 @@ 29 29 ** Select 'Copy', and then 'My Library' from the dropdown 'Other Libraries' 30 30 31 31 * **Start a Jupyter Hub instance ** 32 - Inanother,open[[https:~~/~~/lab.ebrains.eu>>https://lab.ebrains.eu]]33 - 36 +copy the URL to another browser page: 'jupyterhub-preview.apps-dev.hbp.eu' 37 + 34 34 * **Edit the config files** 35 35 Each stage has a config file to specify which analysis/processing blocks to execute and which parameters to use. General and specific information about the blocks and parameters can found in the README and config files. The default values are set for an example dataset (ECoG, anesthetized mouse, IDIBAPS [ref]). 36 36 ** stage01_data_entry: [README.md](), [config.yaml]() ... ... @@ -48,7 +48,7 @@ 48 48 ** Provenance Tracking 49 49 ** HPC support 50 50 51 -=== Localexecution===55 +=== locally === 52 52 53 53 * **Get the code** 54 54 The source code of the pipeline is available via Github: [INM-6/wavescalephant]('https:~/~/github.com/INM-6/wavescalephant') and can be cloned to your machine ([how to use Github]()).