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The GridCAT: A toolbox for automated analysis of human grid cell codes in fMRI

Matthias Stangl, Jonathan Shine, Thomas Wolbers
doi: https://doi.org/10.1101/106096
Matthias Stangl
1German Center for Neurodegenerative Diseases (DZNE), Aging and Cognition Research Group, 39120 Magdeburg, Germany
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Jonathan Shine
1German Center for Neurodegenerative Diseases (DZNE), Aging and Cognition Research Group, 39120 Magdeburg, Germany
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Thomas Wolbers
1German Center for Neurodegenerative Diseases (DZNE), Aging and Cognition Research Group, 39120 Magdeburg, Germany
2Center for Behavioral Brain Sciences, 39118 Magdeburg, Germany
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Abstract

Human fMRI studies examining the putative firing of grid cells (i.e., the grid code) suggest that this cellular mechanism supports not only spatial navigation, but also more abstract cognitive processes. This research area, however, remains relatively unexplored, perhaps us to the complexities of data analysis. To overcome this, we have developed the Matlab-based Grid Code Analysis Toolbox (GridCAT), providing a graphical user interface, and open-source code, for the analysis of fMRI data. The GridCAT performs all analyses, from estimation and fitting of the grid code in the general linear model, to the generation of grid code metrics and plots. Moreover, it is flexible in allowing the specification of bespoke analysis pipelines; example data are provided to demonstrate the GridCAT’s main functionality. We believe the GridCAT is essential to opening this research area to the imaging community, and helping to elucidate the role of human grid codes in higher-order cognitive processes.

Highlights

  • The putative firing of grid cells (i.e., the grid code) can be examined using fMRI

  • Necessary steps for grid code analysis are reviewed

  • The Matlab-based grid code analysis toolbox (GridCAT) is introduced

  • Automated grid code analysis can be conducted either via a graphical user interface or open-source code

  • A detailed manual and an example dataset are provided

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted February 06, 2017.
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The GridCAT: A toolbox for automated analysis of human grid cell codes in fMRI
Matthias Stangl, Jonathan Shine, Thomas Wolbers
bioRxiv 106096; doi: https://doi.org/10.1101/106096
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The GridCAT: A toolbox for automated analysis of human grid cell codes in fMRI
Matthias Stangl, Jonathan Shine, Thomas Wolbers
bioRxiv 106096; doi: https://doi.org/10.1101/106096

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