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Coordinate-based coactivation-based parcellation #260

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tsalo opened this issue Jun 21, 2020 · 2 comments · May be fixed by #533
Open

Coordinate-based coactivation-based parcellation #260

tsalo opened this issue Jun 21, 2020 · 2 comments · May be fixed by #533
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cbma Issues/PRs pertaining to coordinate-based meta-analysis effort: high Estimated high effort task enhancement New feature or request impact: low Estimated low impact task parcellate Issues/PRs related to the parcellate module. priority: low Not urgent
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parcellation module

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@tsalo
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tsalo commented Jun 21, 2020 •
edited

Add coactivation-based parcellation algorithm, as described in Bzdok et al. (2013).

References

Bzdok, D., Laird, A. R., Zilles, K., Fox, P. T., & Eickhoff, S. B. (2013). An investigation of the structural, connectional, and functional subspecialization in the human amygdala. Human brain mapping, 34(12), 3247-3266. https://doi.org/10.1002/hbm.22138
@tsalo tsalo added the enhancement New feature or request label Jun 21, 2020
@tsalo tsalo added this to To do in parcellation module Jun 21, 2020
@tsalo
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tsalo commented Jul 8, 2020 •
edited

Here's a draft of my understanding of the necessary steps:

  1. For each voxel in the mask, identify studies in dataset corresponding to that voxel. Selection criteria can be either based on a distance threshold (e.g., all studies with foci within 5mm of voxel) or based on a minimum number of studies (e.g., the 50 studies reporting foci closest to the voxel).
  2. For each voxel, perform MACM (meta-analysis) using the identified studies.
  3. Correlate statistical maps between voxel MACMs to generate n_voxels X n_voxels correlation matrix.
  4. Convert correlation coefficients to correlation distance (1 - r) values.
  5. Perform clustering on correlation distance matrix.

@tsalo tsalo changed the title Coactivation-based parcellation Coordinate-based coactivation-based parcellation Jul 23, 2020
@tsalo tsalo added the cbma Issues/PRs pertaining to coordinate-based meta-analysis label Apr 20, 2021
@tsalo tsalo linked a pull request Jun 30, 2021 that will close this issue
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tsalo commented Jun 30, 2021

Will compare Bzdok 2013 approach to Chase 2020.

@tsalo tsalo moved this from To do to In progress in parcellation module Jul 20, 2021
@tsalo tsalo added priority: low Not urgent effort: high Estimated high effort task impact: low Estimated low impact task parcellate Issues/PRs related to the parcellate module. labels Jan 5, 2022
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cbma Issues/PRs pertaining to coordinate-based meta-analysis effort: high Estimated high effort task enhancement New feature or request impact: low Estimated low impact task parcellate Issues/PRs related to the parcellate module. priority: low Not urgent
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parcellation module
  
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Add coordinate-based coactivation-based parcellation class tsalo/NiMARE
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