You can map the parcellation from the surface to the volume using the white and
pial surfaces in ${StudyFolder}/${Subject}/T1w/fsaverage_LR32k and the
ribbon-based option. Also, some tractography tools like probtrackx allow you
to track directly to surface ROIs (which is better).
Peace,
Matt.
From: "Shadi, Kamal" <kamal.shad...@gatech.edu<mailto:kamal.shad...@gatech.edu>>
Date: Tuesday, November 1, 2016 at 6:27 PM
To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>>,
"hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: Re: [HCP-Users] FNIRT for HCP diffusion data
Hi Matt.,
Yes, It is an HCP subject.
Thanks,
Kamal
From: "Glasser, Matthew" <glass...@wustl.edu<mailto:glass...@wustl.edu>>
Date: Tuesday, November 1, 2016 at 7:25 PM
To: "Shadi, Kamal" <kamal.shad...@gatech.edu<mailto:kamal.shad...@gatech.edu>>,
"hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: Re: [HCP-Users] FNIRT for HCP diffusion data
Is this an HCP subject or another subject?
Peace,
Matt.
From:
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
on behalf of "Shadi, Kamal"
<kamal.shad...@gatech.edu<mailto:kamal.shad...@gatech.edu>>
Date: Tuesday, November 1, 2016 at 12:18 AM
To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: [HCP-Users] FNIRT for HCP diffusion data
Hi all,
I am trying to run probtrackx using HCP preprocessed diffusion data and MMP1.0
ROIs.
To my understanding the corresponding T1w image of MMP1.0 ROIs is:
HCP_PhaseTwo / Q1-Q6_RelatedParcellation210 / MNINonLinear /
Q1-Q6_RelatedParcellation210_AverageT1w_restore.nii.gz
Is this a right choice?
Now I want to register a subject diffusion.bedpostx directory to the MMP1.0 ROI
space using FNIRT.
Is there an HCP config file for the FNIRT registration? If not any recommended
settings?
Any pointer is much appreciated.
Thanks,
Kamal Shadi
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