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help > RE: text file with MNI (or Talairach) coordinates
Jan 11, 2012 07:01 AM | Alfonso Nieto-Castanon - Boston University
RE: text file with MNI (or Talairach) coordinates
Hi Elise,
You can create a text file with the extension .tal listing the MNI coordinates (x,y,z in mm separated by a space and with one row per voxel; see the *.tal files in the conn/ROIs/ folder for an example) and enter these files into the toolbox. Alternatively you may also create a ROI image file using WFU_pickatlas or some other tool and enter the resulting .img files as ROIs in the toolbox. And yes, you are right that when using batch scripts you may simply enter the appropriate file path in BATCH.Setup.rois.files{i} (if these are subject-independent ROIs, i.e. the same coordinates for all subjects), or a cell array with one file path per subject in the same BATCH.Setup.rois.files{i} field (if these are subject-specific ROIs).
Hope this helps
Alfonso
Originally posted by Elise Lesage:
You can create a text file with the extension .tal listing the MNI coordinates (x,y,z in mm separated by a space and with one row per voxel; see the *.tal files in the conn/ROIs/ folder for an example) and enter these files into the toolbox. Alternatively you may also create a ROI image file using WFU_pickatlas or some other tool and enter the resulting .img files as ROIs in the toolbox. And yes, you are right that when using batch scripts you may simply enter the appropriate file path in BATCH.Setup.rois.files{i} (if these are subject-independent ROIs, i.e. the same coordinates for all subjects), or a cell array with one file path per subject in the same BATCH.Setup.rois.files{i} field (if these are subject-specific ROIs).
Hope this helps
Alfonso
Originally posted by Elise Lesage:
Hi,
I would like to use peak coordinates from a seperate analysis in a seed-to-voxel analysis. From the manual I understand this can be done at the setup phase, but I am not sure what kind of file is required and how to create it.
- should there be one coordinate per file (or can there be more, in seperate rows)?
- what kind of file is required: would a txt work, and if so, should it be tab or comma delimited? (the gui seems to suggest .tal - but I am not familiar with this extension or how to create it).
I would like to run this analysis using the batch script. Would it suffice to just enter the appropriate file path in "BATCH.Setup.rois.files{1}"?
Any help would be very much appreciated!
Elise
PS: Should these coordinates be MNI or Talairach? (The manual suggests the Talairach, but the FAQ section on this site seems to say MNI?)
I would like to use peak coordinates from a seperate analysis in a seed-to-voxel analysis. From the manual I understand this can be done at the setup phase, but I am not sure what kind of file is required and how to create it.
- should there be one coordinate per file (or can there be more, in seperate rows)?
- what kind of file is required: would a txt work, and if so, should it be tab or comma delimited? (the gui seems to suggest .tal - but I am not familiar with this extension or how to create it).
I would like to run this analysis using the batch script. Would it suffice to just enter the appropriate file path in "BATCH.Setup.rois.files{1}"?
Any help would be very much appreciated!
Elise
PS: Should these coordinates be MNI or Talairach? (The manual suggests the Talairach, but the FAQ section on this site seems to say MNI?)
Threaded View
| Title | Author | Date |
|---|---|---|
| Elise Lesage | Jan 5, 2012 | |
| Alfonso Nieto-Castanon | Jan 11, 2012 | |
| Mary Newsome | Apr 29, 2014 | |
| Alfonso Nieto-Castanon | May 1, 2014 | |