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A quick correction: The -bigventricles flag is supported in `recon-all` and in `samseg` but not in `infant_recon_all`, unfortunately.
-Paul
On Mon, Feb 7, 2022 at 2:17 PM Paul Wighton paul@corticometrics.com wrote:
Hi Fateme,
Unfortunately, `-bigventricles` isn't supported on the infant recon stream, that's a feature of the samseg stream.
-Paul
On Fri, Feb 4, 2022 at 1:58 PM Fateme Sadat Haghpanah fh2382@columbia.edu wrote:
External Email - Use CautionDear FreeSurfer Developers,
I am trying to use the InfantFS segmentation pipeline for segmenting images with Ventriculomegaly. I have looked up the archive and found out the -bigventricles. I have tried the following commands but it did not work. Can you help me to figure out how I can segment these images with infantFS?
infant_recon_all -bigventricles --newborn --s ${SUBJ} —> ERROR: Flag -bigventricles unrecognized
Regards, Fateme
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