The ones we would typically use would be:
${StudyFolder}/${Subject}/T1w/T1w_acpc_dc_restore.nii.gz and
${StudyFolder}/${Subject}/T1w/T2w_acpc_dc_restore.nii.gz.
Peace,
Matt.
From:
<[email protected]<mailto:[email protected]>>
on behalf of "Ewert, Siobhan Geraldine"
<[email protected]<mailto:[email protected]>>
Date: Tuesday, March 7, 2017 at 1:58 PM
To: "[email protected]<mailto:[email protected]>"
<[email protected]<mailto:[email protected]>>
Subject: [HCP-Users] preprocessing steps of T1w_hires.nii
Hi all,
Thank you all for providing the HCP data and the great support!
I would like to use the anatomical T1w and T2w data for manual segmentations
and am looking for files that are aligned intra individually but not yet
nonlinearly registered to MNI space (rigid is fine). Which files would those be
in the HCP dataset, these ones?:
'hcp-openaccess/HCP_900/subject-id/T1w/subject-id/mri/T1w_hires.nii.gz’
'hcp-openaccess/HCP_900/subject-id/T1w/subject-id/mri/T2w_hires.nii.gz’
Reading the Glasser Neuroimage paper 2013* I assume the above mentioned files
are
- aligned to each other (coregistered within subject and replaced)
- distortions are removed
- bias field corrected
- and registered rigidly to MNI space (using FSL?)
Is that correct?
Thank you very much!
Best,
Siobhan
*'1) The subject's undistorted native volume space (rigidly “aligned” to the
axes of MNI space), which is where volumes and areas of structures should be
measured and where tractography should be performed, as this space is the best
approximation of the subject's physical brain.'
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