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Introduction

The GUI_environments is a graphical user interface (GUI) developed in Matlab aimed to calculate connectivity matrices using parcellated data (i.e. Gordon1 or HCP2 parcellation schemas) processed following the surface-based registration pipelines implemented in the DCAN labs where the data are saved as ciftis in BIDS format folders3.

The GUI_environments applies motion censoring and calculate connectivity matrices controlling the number of frames across participants. This GUI calculate connectivity matrices using 3 different methods or environments:

  • Standard. Connectivity matrices using Pearson-correlations.
  • No-autocorrelation. Same as before but after removal of autocorrelation.
  • Connectotyping. Using a model based approach as defined in the manuscript Connectotyping: Model Based Fingerprinting of the Functional Connectome” (still Work in Progress due to figuring out a way to generalize jonb submission in different clusters).

To run it, you need an iterative Matlab session and also to have access to the processed data.

References

  1. Gordon EM, Laumann TO, Adeyemo B, Huckins JF, Kelley WM, Petersen SE. 2014. Generation and Evaluation of a Cortical Area Parcellation from Resting-State Correlations. Cereb Cortex. 26(1):288–303. doi:10.1093/cercor/bhu239. [accessed 2014 Oct 15]. http://www.cercor.oxfordjournals.org/cgi/doi/10.1093/cercor/bhu239.

  2. Glasser MF, Coalson TS, Robinson EC, Hacker CD, Harwell J, Yacoub E, Ugurbil K, Andersson J, Beckmann CF, Jenkinson M, Smith SM, Van Essen DC, 2016. A multi-modal parcellation of human cerebral cortex. Nature, 536, pp. 171–178.

  3. Gorgolewski KJ, Alfaro-Almagro F, Auer T, Bellec P, Capotă M, Chakravarty MM, Churchill NW, Cohen AL, Craddock RC, Devenyi GA, et al. 2017. BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods. PLoS Comput Biol. 13(3):e1005209. doi:10.1371/journal.pcbi.1005209. http://www.ncbi.nlm.nih.gov/pubmed/28278228.