Try this instead
set gcam =
$SUBJECTS_DIR/$subject/cvs/final_CVSmorph_tocvs_avg35_inMNI152.m3z
set dstreg =
$FREESURFER_HOME/subjects/cvs_avg35_inMNI152/mri.2mm/register.lta
mri_vol2vol --gcam ${meanb0_bet} ${b0toT1mat_bet} $gcam $dstreg 0 1
${b0_to040_2_t1w}
This (admittedly cryptic)
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I’d be happy to. This is the call:
mri_vol2vol --targ ${target} \
--m3z $cvsmorph \
--noDefM3zPath --reg ${b0toT1mat_bet} \
--mov ${meanb0_bet} \
--o ${b0_to040_2_t1w} \
--interp trilin
Can you send the mri_vol2vol command line?
On 2/28/2020 4:46 PM, Austin Patrick wrote:
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The b0-to-anat look fine. I’m using mri_vol2vol with trilinear
interpolation to apply the CVS warps.
Thanks,
-Austin
*From: * on behalf of "Douglas
N. Greve"
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The b0-to-anat look fine. I’m using mri_vol2vol with trilinear interpolation to
apply the CVS warps.
Thanks,
-Austin
From: on behalf of "Douglas N. Greve"
Reply-To: Freesurfer support list
Date: Friday, February 28, 2020 at 3:18 PM
To:
So the B0-to-Anat registration is ok? What command are you using to map
the B0s into the CVS space?
On 2/26/2020 3:50 PM, Austin Patrick wrote:
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Dear All,
I have used CVS to align around 180 scans to a single, representative
subject. I have then used BBR
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Dear All,
I have used CVS to align around 180 scans to a single, representative subject.
I have then used BBR to align the mean b0 image to register the diffusion data
to the native space T1 and then apply CVS warps; however, the resulting aligned
