Hi Freesurfers, I am trying to generate binary V1 and V2 masks based on my fieldsign results. We created a custom annotation file by adding the two new areas (muuV1 and muuV2, entries 36 and 37, resp., i.e., in Matlab in rows 37 and 38) to the aparc color table using Matlab and setting all labels to zero. Then we marked the areas in tksurfer (imported the annotation file, made closed paths around the vertices, and added it to the muuV1 or muuV2 label) and exported the annotation file.
This worked fine, but when we used aparc2feat (on feat data previously registered with regfeat2anat) using the --annot <our_annot> option, only muuV1 (entry 36) was correctly extracted, and there were no entries for label 37 in the resulting volume.
Do you have any idea what could have gone wrong?
I attached our annotation file (gzipped) containing the marked areas muuV1 and muuV2.
Thank you very much, Michelle
Yea, this is bug in a program called by aparc2feat. You can get a new (Linux version) here ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_label2vol doug
Michelle Umali wrote:
Hi Freesurfers, I am trying to generate binary V1 and V2 masks based on my fieldsign results. We created a custom annotation file by adding the two new areas (muuV1 and muuV2, entries 36 and 37, resp., i.e., in Matlab in rows 37 and 38) to the aparc color table using Matlab and setting all labels to zero. Then we marked the areas in tksurfer (imported the annotation file, made closed paths around the vertices, and added it to the muuV1 or muuV2 label) and exported the annotation file.
This worked fine, but when we used aparc2feat (on feat data previously registered with regfeat2anat) using the --annot <our_annot> option, only muuV1 (entry 36) was correctly extracted, and there were no entries for label 37 in the resulting volume.
Do you have any idea what could have gone wrong?
I attached our annotation file (gzipped) containing the marked areas muuV1 and muuV2.
Thank you very much, Michelle
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Michelle Umali