Results 126 - 150 of 362 results out of about 3772 pages. (1.14 seconds)

FsFastTutorialV5.1/FsFastPreProc . . . 5 matches
...essing includes 1. Template Creation 1. Brain Mask Creation 1. Registration with FreeSurfer Anatomical 1. Motion Correction 1. Slice Timing Correction (if using) 1. Spatial ...

12.8k - rev: 28 (current) last modified: 2016-09-15 16:15:55

FsFastRegisterToStructural . . . 5 matches
...e) transformation matrix to map between the individual's functional data and his/her FreeSurfer structural/anatomical data (namely, the orig.mgz volume in the FreeSurfer mri direct...

3.7k - rev: 16 (current) last modified: 2008-04-29 11:46:02

FsAnat-to-NativeAnat . . . 5 matches
...= How to Convert from FreeSurfer Space Back to Native Anatomical Space = == Regular Stream == For the longitudinal stream, scroll down. Question: I have successfully run a subje...

3.5k - rev: 15 (current) last modified: 2019-04-16 15:40:48

FSL . . . 5 matches
...rrent locally tested version is always symlinked through the 'current' link. When FreeSurfer is setup (via {{{source /usr/local/freesurfer/nmr-stable51-env}}} it will also setup...

0.8k - rev: 7 (current) last modified: 2014-10-18 16:25:33

DraftChallenges . . . 5 matches
...[[Contour|Contour]] [[Introduction to FreeSurfer Output DRAFT]] = Introduction to FreeSurfer Output = === Exercise 1 === '''Difficulty:''' Beginner '''Goal:''' Practice basic Fr...

15.6k - rev: 38 (current) last modified: 2019-10-28 13:17:59

BrainmapOntology_Yeo2015 . . . 5 matches
... [[FreeSurferWiki|top]] = Nested Cognitive Ontology Estimated From 10,449 Experiments = ||We applied a hierarchical Bayesian model (figure on right) on 10,449 Brainmap experiment...

4.2k - rev: 74 (current) last modified: 2015-10-15 20:35:10

trac-all-full . . . 4 matches
... cortical and whole-brain masks - Generate masks of the white matter and cortex from FreeSurfer outputs, whole-brain masks from T1 and DWIs. ||-masks ||to do this step (Default) ||...

13.1k - rev: 1 (current) last modified: 2011-05-18 12:37:41

mris_label2annot . . . 4 matches
...es, their indices, and their color. This must have the same format as that found in $FREESURFER_HOME/FreeSurferColorLUT.txt. <<BR>>The colortable file gets incorporated into the ou...

4.8k - rev: 14 (current) last modified: 2017-12-20 11:54:21

mri_surf2vol . . . 4 matches
...ame. Not needed with --merge. See FORMATS below. || ||--fstal res || Sets volreg to $FREESURFER_HOME/average/mni305.cor.subfov$res.reg and template to $FREESURFER_HOME/average/mni3...

6.3k - rev: 11 (current) last modified: 2019-02-19 17:14:50

mri_surf2surf . . . 4 matches
...rguments == || --src_type <typestring> ||Format type string||Can be either curv (for FreeSurfer curvature file), paint or w (for FreeSurfer paint files), or anything accepted by mr...

5.9k - rev: 8 (current) last modified: 2019-07-30 17:30:54

UserContributions . . . 4 matches
...Please add a link to a wiki page or website that describes your contribution to !FreeSurfer. === Categories === * [[/Scripts|Scripts]] - Tcl, Python and shell scripts for all Fre...

0.6k - rev: 18 (current) last modified: 2016-06-08 16:08:14

TemplateTifImageFiles . . . 4 matches
...ss = This page describes technical aspects of the "template" file type used in the !FreeSurfer pipeline as part of the process of coregistering the surfaces of individual subjects...

5.6k - rev: 29 (current) last modified: 2009-02-02 20:29:28

SurfaceLabelAtlas . . . 4 matches
... = Overview = This document provides an overview of two related topics: * How the !FreeSurfer pipeline automatically labels a subject's regions (producing an annotation file) by ...

4.4k - rev: 16 (current) last modified: 2021-05-03 08:56:36

ScubaGuide/ScubaGeneralUsage/ScubaQuickStart . . . 4 matches
...y typing {{{scuba}}} on the command line. Make sure to have the environment variable FREESURFER_HOME set to a freesurfer installation that includes scuba (FreeSurferDev). == Loadi...

3.9k - rev: 4 (current) last modified: 2008-04-29 11:45:31

ScubaGuide/GUI . . . 4 matches
...y typing {{{scuba}}} on the command line. Make sure to have the environment variable FREESURFER_HOME set to a freesurfer installation that includes scuba (FreeSurferDev). == Loadi...

16.6k - rev: 6 (current) last modified: 2008-04-29 11:45:15

Perirhinal . . . 4 matches
...oundaries) while the standard 1mm scan provided the surface template that works with FreeSurfer. This perirhinal label was validated with histological staining and thus cytoarchite...

2.0k - rev: 18 (current) last modified: 2021-09-22 11:17:58

MonkeyData . . . 4 matches
...== Monkey Data And FreeSurfer == This page contains notes on how to process monkey data using Freesurfer. ---- For starters, Sebastian Moeller has provided [[attachment:myscripts...

1.9k - rev: 11 (current) last modified: 2021-05-03 08:55:18

MiDeFace2 . . . 4 matches
...'''mideface - a FreeSurfer tool for Minimally Invasive DeFacing of MRI images''' <<TableOfContents>> == Introduction == MRI images of the brain inevitably include the head and so t...

11.3k - rev: 1 (current) last modified: 2022-09-21 11:29:26

HeritabilityAnalysis_Ge2015 . . . 4 matches
...ity-Analysis-(2015).aspx ---- <<BR>> <<BR>> <<BR>> ## HeritabilityAnalysis_Ge2015 [[FreeSurferWiki|top]] = Heritability Maps of Cortical Structure Estimated with MEGHA = We are ...

2.8k - rev: 15 (current) last modified: 2021-05-03 08:35:32

HelpOnCommandTemplate . . . 4 matches
...format helps maintain a consistent style specification across all of the commands in FreeSurfer. (To actually ''use'' a template to create a new page, see comments at bottom. -- ...

4.2k - rev: 12 (current) last modified: 2008-04-29 11:45:22

FsTutorial/MultiModalRegistration_tktools . . . 4 matches
...s to get you acquainted with the concepts need to perform multi-modal integration in FreeSurfer using fMRI and DTI analysis. You will not learn how to perform fMRI or DTI analysis ...

5.9k - rev: 51 (current) last modified: 2014-01-28 16:22:06

FsTutorial/MultiModalFmriGroup_tktools . . . 4 matches
...orial is to get you acquainted with the concepts need to perform fMRI integration in FreeSurfer by interacting with the data from several subjects in a group analysis. You will not...

10.4k - rev: 29 (current) last modified: 2014-01-28 16:48:27

FsFastTutorialV5.1/FsFastDirStruct_freeview . . . 4 matches
...irectory structure and raw data are usually created by "unpacking" the data with the FreeSurfer dcmunpack or unpacksdcmdir programs, but it could also be done by hand. The subjectn...

7.3k - rev: 7 (current) last modified: 2015-09-22 16:07:24

FsFastTutorialV5.1/FsFastDirStruct . . . 4 matches
...irectory structure and raw data are usually created by "unpacking" the data with the FreeSurfer dcmunpack or unpacksdcmdir programs, but it could also be done by hand. The subjectn...

7.4k - rev: 31 (current) last modified: 2016-09-01 17:55:56

FsFastAnlysisBySteps . . . 4 matches
...[[FreeSurferWiki|top]] '''# Unpack Data into the FSFAST Hierarchy using "unpackscmdir"''' 1. QA Check after unpacking * '''A''' - Check unpacked data (t...

8.3k - rev: 12 (current) last modified: 2008-04-29 11:46:14

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