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||<^>TemplateTifImageFiles||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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||["mris_curvature_stats"] || ||
||["mris_label2annot"] || ||
||["mri_annotation2label"]|| ||
||["mris_make_template"]|| ||
||["mri_make_template"]|| ||
||["mris_register"]|| ||
||<^>["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.||

GrahamWideman pages

Useful pages

Link

Description

Concepts

ReconAllFilesVsSteps

Cross-reference table showing files read and written by each step in recon-all

LabelsClutsAnnotationFiles

Article on labels, colortables and annotations

RegTemplateParcAtlas

Overview: BR --Creating and using "tif" templates for spherical registration of surfacesBR --Creating and using GCA atlas files for parcellation

TemplateTifImageFiles

Discussion of the contents and format of the so-called "Image" file format used to store FreeSurfer surface-registration template data.

Scripts

QaImageScripts

Sample scripts to produce "screencaps" en masse from tksurfer and tkmedit for QA

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.

Test Pages

GrahamWideman (last edited 2013-10-10 03:40:06 by GrahamWideman)