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GrahamWideman pages
Useful pages
Link |
Description |
Concepts |
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Cross-reference table showing files read and written by each step in recon-all |
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Article on labels, colortables and annotations |
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Overview: BR --Creating and using "tif" templates for spherical registration of surfacesBR --Creating and using GCA atlas files for parcellation |
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Discussion of the contents and format of the so-called "Image" file format used to store FreeSurfer surface-registration template data. |
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Scripts |
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Sample scripts to produce "screencaps" en masse from tksurfer and tkmedit for QA |
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Commands |
(... for which I wrote some documentation) |
["mris_curvature_stats"] |
Curvature-related statistics |
["mris_label2annot"] |
Combine label files plus colortable into an annotation file |
["mri_annotation2label"] |
Extract label file from annotation file |
["mris_make_template"] |
Use data from multiple subjects to create a surface registration template file |
["mri_make_template"] |
Use data from multiple subjects to create a volume registration template |
["mris_register"] |
For one subject, register to a registration template (usually resulting in ?h.sphere.reg) |
["mrisp_paint"] |
"Paint" data from a template file "onto a given surface". Allows viewing data from a template file. |
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Wiki |
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Distilled instructions on how to insert an image on a wiki page |
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