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For skullstrip: recon-all -skullstrip -wsthresh 15 -clean-bm -subjid
For wm: recon-all -autorecon2-wm -autorecon3 -subjid
> On Oct 8, 2021, at 12:40 PM, Douglas N. Greve wrote:
>
> what were your recon-all commands?
>
> On 10/2/2021 4:55 PM, Kev
what were your recon-all commands?
On 10/2/2021 4:55 PM, Kevin Miller wrote:
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The mri_diff command did show differences after re-running the wm and
skullstrip commands under different names, but the differences were
not related to the areas that I was trou
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Hello,
I just wanted to briefly follow up on this issue. Do you have any advice or
suggestions for finding out why I am only receiving unrelated changes to
volumes after re-running recon-all?
Thanks
> On Oct 1, 2021, at 11:02 AM, Douglas N. Greve
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The mri_diff command did show differences after re-running the wm and
skullstrip commands under different names, but the differences were not related
to the areas that I was troubleshooting. For example, I took the skullstrip ws
height down to 10 for
The first thing to do is to re-run you data using different subject
names so that you have an unedited version. You can then use mri_diff, eg,
mri_diff unedited/mri/wm.mgz edited/mri/wm.mgz
to determine if there is a differenece that you are just not seeing
On 9/27/2021 7:16 PM, Kevin Miller wro
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Hi,
I am new to recon-all and Freesurfer and I am having some difficulty tracking
down the resulting outputs from when I re-run recon-all or they are not taking
hold. So far I have edited two subjects after the initial run by lowering the
ws height
