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Research ArticleOpen Source Tools and Methods, Novel Tools and Methods

DeepCINAC: A Deep-Learning-Based Python Toolbox for Inferring Calcium Imaging Neuronal Activity Based on Movie Visualization

Julien Denis, Robin F. Dard, Eleonora Quiroli, Rosa Cossart and Michel A. Picardo
eNeuro 22 July 2020, 7 (4) ENEURO.0038-20.2020; https://doi.org/10.1523/ENEURO.0038-20.2020
Julien Denis
Aix Marseille Univ, INSERM, INMED, Marseille 13273, France
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Robin F. Dard
Aix Marseille Univ, INSERM, INMED, Marseille 13273, France
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Eleonora Quiroli
Aix Marseille Univ, INSERM, INMED, Marseille 13273, France
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Rosa Cossart
Aix Marseille Univ, INSERM, INMED, Marseille 13273, France
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Michel A. Picardo
Aix Marseille Univ, INSERM, INMED, Marseille 13273, France
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Article Information

DOI 
https://doi.org/10.1523/ENEURO.0038-20.2020
PubMed 
32699072
Published By 
Society for Neuroscience
History 
  • Received February 3, 2020
  • Revision received July 6, 2020
  • Accepted July 10, 2020
  • Published online July 22, 2020.
Copyright & Usage 
Copyright © 2020 Denis et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license, which permits unrestricted use, distribution and reproduction in any medium provided that the original work is properly attributed.

Author Information

  1. Julien Denis*,
  2. Robin F. Dard*,
  3. Eleonora Quiroli,
  4. Rosa Cossart and
  5. Michel A. Picardo
  1. Aix Marseille Univ, INSERM, INMED, Marseille 13273, France
  1. Correspondence should be addressed to Julien Denis at julien.denis{at}inserm.fr.
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Author contributions

  1. Author contributions: J.D., R.F.D., R.C., and M.A.P. Designed Research; R.F.D. and J.D. Performed Research; J.D. Wrote code; M.P., J.D., R.F.D., and E.Q., Labeled data; R.F.D., J.D., M.A.P., and R.C. Wrote the paper.

  2. ↵*J.D. and R.F.D. contributed equally to this work.

Disclosures

  • The authors declare no competing financial interests.

  • This work was supported by the European Research Council under the European Union’s FP7 and Horizon 2020 research and innovation program Grants 242842 and 646925. J.D. was supported by the Fondation pour la Recherche Médicale Grant FDM20170638339. M.P was supported by the Fondation pour la Recherche Médicale Grant ARF20160936186.

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Jul 20203630105
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Jul 20251411345
Aug 20251010931
Sep 20251515239
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Total 20251281205321
Total128574402343
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eneuro: 7 (4)
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July/August 2020
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DeepCINAC: A Deep-Learning-Based Python Toolbox for Inferring Calcium Imaging Neuronal Activity Based on Movie Visualization
Julien Denis, Robin F. Dard, Eleonora Quiroli, Rosa Cossart, Michel A. Picardo
eNeuro 22 July 2020, 7 (4) ENEURO.0038-20.2020; DOI: 10.1523/ENEURO.0038-20.2020

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DeepCINAC: A Deep-Learning-Based Python Toolbox for Inferring Calcium Imaging Neuronal Activity Based on Movie Visualization
Julien Denis, Robin F. Dard, Eleonora Quiroli, Rosa Cossart, Michel A. Picardo
eNeuro 22 July 2020, 7 (4) ENEURO.0038-20.2020; DOI: 10.1523/ENEURO.0038-20.2020
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Keywords

  • calcium imaging
  • CNN
  • deep learning
  • hippocampus
  • LSTM
  • neuronal activity

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