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Was that caused by using short? Ie, if you don't use short, is there
still a problem?
On 6/20/2023 10:21 AM, Ruifeng Dong wrote:
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Hi Douglas,
Thanks. Out of curiosity, I kept the short data type in the
mri_convert --conform by adding options -odt short -ns 1. Freesurfer
6.0 ran well until its default skull stripping, attached below.
Screenshot from 2023-06-20 10-20-03.png
Best,
Ruifeng
On Tue, Jun 20, 2023 at 9:59 AM Douglas N. Greve
<dgr...@mgh.harvard.edu> wrote:
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This was done a long time ago to conserve space/memory. There is a
rescaling that is done, so it should not affect the bias
correction much
On 6/14/2023 3:35 PM, Ruifeng Dong wrote:
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Hi Yujing,
Thanks. I am wondering about the reason why Freesurfer converts
data types to uchar. Doesn't this affect the non-uniformity bias
correction that follows?
Best,
Ruifeng
On Tue, Jun 13, 2023 at 9:37 AM Huang, Yujing
<yhuan...@mgh.harvard.edu> wrote:
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Hi Ruifeng,
You can pass -nc (nochange) flag to mri_convert to keep the
original data type.
Best,
Yujing
*From:*freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> *On Behalf Of
*ruifen...@gmail.com
*Sent:* Thursday, May 25, 2023 2:45 PM
*To:* freesurfer@nmr.mgh.harvard.edu
*Subject:* [Freesurfer] Question about mri_convert --conform
* External Email - Use Caution *
Hi all,
My input 001.mgz has data type short, but converted to
unsigned byte. The plot shows the intensity of thee two
images. How is the data conversion done? Thanks.
Best,
Ruifeng
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