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For the sclimbic, you can find it in $FREESURFER/models/sclimbic.ctab
For the brainstem, the labels are in the main FS table,
$FREESURFER/FreeSurferColorLUT.txt
I think there are only three labels in the brainstem, so you can load it
into freeview to pull out the indices
On 5/22/2023 9:18 AM, Yoo, Chi-Hyeon wrote:
External Email - Use Caution
Hello,
I am Chi-Hyeon, a postdoc at the Martinos Center.
One of my colleagues wants to try to use advance
segmentations:brainstem substructures segmentation(*MailScanner has
detected a possible fraud attempt from "secure-web.cisco.com" claiming
to be*
https://secure-web.cisco.com/1UWiwhhMqHQGIdhftZdIRtHjnjeRBMqfoGlnzhRd7aIAZIOhVfByhKVyM-rqnNN5oHybFiUx-orfZxdZZkEmGdcybjbasyMzRQH4D4cHKdH0Qg0VMEiVIMbwnSMtkp6Xskcfoc6SL6KbhWpIjdBvykyoU0uQwBRusB-BHKoGqe-Mz84RBw9dgDk_t8FnbDJaslMkuhgcYqpQNjpum1MuBDpU5cpqAEbDdP5OYa9D6J4i0DH8N54w4ujoV_Os7f8j4jh3_a7wAUtRyo0Q9SMmoew/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FBrainstemSubstructures
<https://secure-web.cisco.com/10i08joHQng6yy87_-Iv618kYQPXRW-hpxjKH9kcjO2KOqVvlM4Qc6B8P72pJrIrntUcBIDuPBxUFDSuywKNrXNNWrbdZrXsSxgWXdoEPhmXB7JwaJrlVx8d_L0LSfOlo9m5jMFn4twQtwfLwsK5oJo934aKdF2khIuQfUlalPoIg-avsUQs3a9TKdsaLFefdCbRaFIhXx10p__FO-768SogKW7klpJdXrGxoFh06FAUb13ze-C_fQi2XwIeDgVatTk8iv7cpT6FFpS0GUg6djw/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FBrainstemSubstructures>), and
limbic segmentation(*MailScanner has detected a possible fraud attempt
from "secure-web.cisco.com" claiming to be*
https://secure-web.cisco.com/1ixRmL9K3mai-f5kaHhSzRDv_5vB0T_3iAMndNZwdrDafS9GJ-4s9EhIoR-1c9odchOn7loADrWTZ-U0ji_36uOeK4lQAAiQo3uRaJR5vaNw7rFdIEB7Rbcb0Vw71ksFI4iJsH8tvFDs7PxZFvu4XinvXWwGHirzFGKjwGlFR7TaHiyLt9CtgIx-rRvg9yJjO2jhjzqh9dg36Ieu45-q-m5IX8FYAvm2yxMBSQBwIAeqSGOfO2M4sw_Wj9Ykqe9InOa7pmVuotawFYl5qUfF2LA/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FScLimbic
<https://secure-web.cisco.com/1G7Fom1uIgN-gFY6zk_6Hke0zvGSdyKnPlI53oHnUoBSckWK4zMKapZhh9rE4F8g1nZvF3iu0kfPWwr7HWeMhVjuXLtqG9UPfKlrmX3uFCM8wTx9yMP9-pdjEomnWAEulXWCEgdBZo39mNe5NTIyf8qYRiemvlem9Dg8d_5TLp-HaoyHh8Ct5bBnNNLyTPycpN078uE2qtH0pD-UeOlaCiPdVB_3-veu-XPTonlfBXCZHTeOSWvR0Qd1dN46rdpT4MxvXmK_AvWrI4IwwYZvXXQ/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FScLimbic>).
Thanks to the instructions, I was able to generate the segmentations
but I cannot find the lookup table for the labels for this versions of
segmentation.
I will need a look-up table to generate binary masks from these
segmentations to eventually export PET values from that binary
segmentation masks.
Please let me know where I could find the labels for these sets of
segmentations.
Chi-Hyeon
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