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help > RE: Problem displaying surface-level analyses
Jan 27, 2020 11:01 AM | Alfonso Nieto-Castanon - Boston University
RE: Problem displaying surface-level analyses
Hi Amy,
Thanks for reporting this, it looks like the coordinates of your ROIs are being misinterpreted by these displays. Could you please let me know a bit more information about the specifc ROIs that you are using here? are they surface-based ROIs defined for example using a freesurfer .annot file, are they defined in MNI-space ROIs but simply part of an otherwise surface-level analysis, what functional data are they associated with -in the "compute average timeseries from .. dataset." field-, etc.
And regarding diffusion steps, 10 is a minimal value (somewhat similar to ~4mm in 3d volumes) I typically find 40 steps (somewhat similar to ~8mm in 3d volumes) a little bit better (for more details see Hagler Jr, D. J., Saygin, A. P., & Sereno, M. I. (2006). Smoothing and cluster thresholding for cortical surface-based group analysis of fMRI data. Neuroimage, 33(4), 1093-1103)
Thanks
Alfonso
Originally posted by Amy Bouchard:
Thanks for reporting this, it looks like the coordinates of your ROIs are being misinterpreted by these displays. Could you please let me know a bit more information about the specifc ROIs that you are using here? are they surface-based ROIs defined for example using a freesurfer .annot file, are they defined in MNI-space ROIs but simply part of an otherwise surface-level analysis, what functional data are they associated with -in the "compute average timeseries from .. dataset." field-, etc.
And regarding diffusion steps, 10 is a minimal value (somewhat similar to ~4mm in 3d volumes) I typically find 40 steps (somewhat similar to ~8mm in 3d volumes) a little bit better (for more details see Hagler Jr, D. J., Saygin, A. P., & Sereno, M. I. (2006). Smoothing and cluster thresholding for cortical surface-based group analysis of fMRI data. Neuroimage, 33(4), 1093-1103)
Thanks
Alfonso
Originally posted by Amy Bouchard:
Hi Alfonso,
There is a problem displaying results for ROI-to-ROI surface analyses (see attachment). Some of the regions are outside the brain.
Could you please advise on how to fix this?
Also, are 10 diffusion steps sufficient for smoothing?
Thank you,
Best Regards,
Amy
There is a problem displaying results for ROI-to-ROI surface analyses (see attachment). Some of the regions are outside the brain.
Could you please advise on how to fix this?
Also, are 10 diffusion steps sufficient for smoothing?
Thank you,
Best Regards,
Amy
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Title | Author | Date |
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Amy Bouchard | Jan 22, 2020 | |
Alfonso Nieto-Castanon | Jan 27, 2020 | |
Amy Bouchard | Jan 27, 2020 | |
Alfonso Nieto-Castanon | Feb 6, 2020 | |
Amy Bouchard | Feb 12, 2020 | |
Alfonso Nieto-Castanon | Feb 14, 2020 | |
Amy Bouchard | Feb 15, 2020 | |
Amy Bouchard | Feb 16, 2020 | |
Alfonso Nieto-Castanon | Feb 16, 2020 | |
Amy Bouchard | Feb 16, 2020 | |
Alfonso Nieto-Castanon | Feb 16, 2020 | |
Amy Bouchard | Feb 16, 2020 | |
Alfonso Nieto-Castanon | Feb 16, 2020 | |
Amy Bouchard | Feb 16, 2020 | |
Alfonso Nieto-Castanon | Feb 16, 2020 | |
Amy Bouchard | Feb 16, 2020 | |
Alfonso Nieto-Castanon | Feb 17, 2020 | |
Andrew Lynn | Oct 8, 2020 | |
Alfonso Nieto-Castanon | Oct 8, 2020 | |
Andrew Lynn | Oct 8, 2020 | |
Amy Bouchard | Feb 18, 2020 | |
Alfonso Nieto-Castanon | Feb 19, 2020 | |
Amy Bouchard | Feb 19, 2020 | |
Amy Bouchard | Feb 17, 2020 | |
Amy Bouchard | Feb 16, 2020 | |
Alfonso Nieto-Castanon | Feb 16, 2020 | |
Amy Bouchard | Feb 6, 2020 | |
Amy Bouchard | Feb 5, 2020 | |