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epilepsy-potassium-calculation
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README.md

About

Model of Ictal and Interictal discharges during epilepsy. Please see this article for details.

Install

You need Python of version 3.6 or higher. Also I highly recommend to use environments for work. Anaconda is a good choice. The required dependencies are: matplotlib, scipy, numpy, numba, pyyaml.

pip install matplotlib scipy numpy numba pyyaml

Run

  • Adjust params as you need in params_0d.py and params_2d.py.
  • Execute python epileptor/model_2d_full.py. It gives 3 files as the result in results dir. These files have names: <YYYY-mm-dd_HH.MM>_plain.npz, <YYYY-mm-dd_HH.MM>_points.npz, <YYYY-mm-dd_HH.MM>_params.yml correspondingly, where <YYYY-mm-dd_HH.MM> is the date/time when your execution ended.
  • To display results execute python -d results/<YYYY-mm-dd_HH.MM> epileptor/display_2D.py.
  • Look up the display results in media directory. They all have <YYYY-mm-dd_HH.MM> part in common.

Example Your execution successfully ended. You have 3 results: 2019-01-27_17.14_plain.npz, 2019-01-27_17.14_points.npz, 2019-01-27_17.14_params.yml. <YYYY-mm-dd_HH.MM> is represented as 2019-01-27_17.14.

datacite.yml
Title A Simple Model of Epileptic Seizure Propagation: Potassium Diffusion Versus Axo-Dendritic Spread
Authors Chizhov,Anton;Affiliation1;ORCID:0000-0001-2345-6789
Sanin,Aleksei;Affiliation2;ResearcherID:X-1234-5678
Description Example description that can contain linebreaks but has to maintain indentation.
License Creative Commons CC0 1.0 Public Domain Dedication (https://creativecommons.org/publicdomain/zero/1.0/)
References PublicationName1 [doi:10.xxx/zzzz] (IsSupplementTo)
PublicationName2 [arxiv:mmmm.nnnn] (IsSupplementTo)
PublicationName3 [pmid:nnnnnnnn] (IsReferencedBy)
Funding DFG, DFG.12345
EU, EU.12345
Keywords Neuroscience
Electrophysiology
Resource Type Dataset