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FsTutorial/GroupAnalysis_tktools . . . 9 matches
... are the commands that you need to run before getting started: {{{ tcsh source your_freesurfer_dir/SetUpFreeSurfer.csh setenv SUBJECTS_DIR $TUTORIAL_DATA/buckner_data/tutorial_sub...

14.9k - rev: 132 (current) last modified: 2014-01-28 16:08:46

FsPalm . . . 9 matches
...{{{#!html <h1>Integrating FreeSurfer and PALM</h1> }}} <<TableOfContents(3)>> === Introduction === fspalm is a FreeSurfer script written to aid in the use of Permutation Analysis ...

8.0k - rev: 18 (current) last modified: 2022-03-27 17:21:25

CoursePrep . . . 9 matches
...= How to Prepare for the FreeSurfer Course = == "Required" Preparation == If you are a beginner to !FreeSurfer, the following content is HIGHLY recommended to enhance your enjoym...

2.7k - rev: 24 (current) last modified: 2019-08-29 10:42:30

Brainstorm . . . 9 matches
...analysis (visualization, processing and advanced source modeling). Integration with Freesurfer (product of François Tade) includes the following: == Subject co-registration == Th...

2.0k - rev: 7 (current) last modified: 2013-08-13 10:17:13

mri_vol2vol . . . 8 matches
...vol - Resamples a volume into another field-of-view using varous types of matrices (!FreeSurfer, FSL, SPM, and MNI). = Synopsis = mri_vol2vol = Arguments = == Required Flagged ...

8.5k - rev: 11 (current) last modified: 2017-10-04 08:29:34

WMH-SynthSeg . . . 8 matches
... work around this by downloading WMH-SynthSeg independently (from https://github.com/freesurfer/freesurfer/) and running it from FreeSurfer 7.4.1. Apologies for the inconvenience!'...

5.6k - rev: 19 (current) last modified: 2024-04-05 15:56:47

UnixTutorial . . . 8 matches
...nals? == Throughout this course you will be using the Unix terminal to interact with FreeSurfer and access data. Many computer programs for scientific use are designed to be operat...

10.5k - rev: 35 (current) last modified: 2019-09-23 07:42:40

SynthSR . . . 8 matches
...= SynthSR = '''''This functionality was made available in version 7.3.0 of FreeSurfer.''''' <<BR>> <<BR>> '''''Please note that version 2.0 of the tool was released in the develop...

7.9k - rev: 28 (current) last modified: 2023-02-08 10:39:01

SubmillimeterRecon . . . 8 matches
...bmillimeter resolution = See also HighFieldRecon This page describes how to run the FreeSurfer recon-all for data with voxel sizes less than 1mm3 at native resolution. Several Fre...

4.4k - rev: 14 (current) last modified: 2017-10-28 16:07:43

SoftwareEngineer . . . 8 matches
... = Software Engineer - Job Opening = FreeSurfer is a multi-platform suite of software tools for the analysis of brain imaging data in use by thousands of neuroscientists, enginee...

4.5k - rev: 55 (current) last modified: 2017-07-24 12:52:02

PetSurferKmTutorial . . . 8 matches
...effect in the bindind potentials. = Getting the Data (not necessary for the Boston FreeSurfer Course) = = Analyzing an Individual Subject = Change directory into the project fol...

9.6k - rev: 16 (current) last modified: 2019-09-25 18:21:27

LabelsClutsAnnotationFiles . . . 8 matches
...Color Lookup Tables and Annotation Files = This page discusses the basic concepts of FreeSurfer files that relate to identifying regions-of-interest for surfaces and volumes, namel...

12.5k - rev: 43 (current) last modified: 2018-09-28 13:42:03

FsTutorial/FuncRegistration . . . 8 matches
...[[FsTutorial|top]] | [[FsTutorial/SpmFreeSurfer|previous]] == FreeSurfer Tutorial: Registration of functional and structural data (25 minutes of exercises) == In FreeSurfer, a pa...

3.7k - rev: 10 (current) last modified: 2008-04-29 11:45:55

FsFastTutorialV4.5/930_Run_functional_and_structural_registration . . . 8 matches
...ctory where you keep the subjects whose anatomical data have been reconstructed with FreeSurfer.. === INTERFACING WITH FREESURFER === Linking into Freesurfer allows the user to v...

8.7k - rev: 5 (current) last modified: 2011-05-19 15:29:07

bbregister . . . 7 matches
... required that you have an anatomical scan of the subject that has been analyzed in freesurfer. Those using bbregister should site: Greve, D. N., and Fischl, B. (2009). "Accurate...

7.7k - rev: 7 (current) last modified: 2019-07-11 13:35:54

ResearchAssistant . . . 7 matches
... working in a fast-paced computational neuroimaging lab well known for its software, FreeSurfer. The lab is comprised of faculty, postdocs, graduate students, and research assistan...

10.0k - rev: 35 (current) last modified: 2022-10-26 10:24:45

QATools . . . 7 matches
...= FreeSurfer 5.3 QA Tools = == Deprecated == Note: The QA tools described in this page were developed for !FreeSurfer 5.3. For versions 7+, use the following executable to comput...

5.9k - rev: 109 (current) last modified: 2021-08-12 10:51:08

NextGenCode . . . 7 matches
... <<TableOfContents(3)>> ''a grab-bag of notes on what we'd like to see in the ideal freesurfer source code environment, and runtime'' == Newer respository == * evaluate DVCS li...

3.7k - rev: 23 (current) last modified: 2021-05-10 08:27:20

LongitudinalProcessingPreV4.4 . . . 7 matches
...g increased interest and popularity in various aspects of neuroscience. The default FreeSurfer pipeline is designed for the processing of individual data set, and thus not optimal...

13.1k - rev: 1 (current) last modified: 2009-05-21 14:55:02

HistoricalReconstruction . . . 7 matches
...[[FreeSurferWorkFlows|top]] | [[RecommendedReconstruction|previous]] | [[SubcorticalSegmentation|next]] This workflow uses the older version of FreeSurfer, in which manual editing...

3.0k - rev: 27 (current) last modified: 2021-09-22 11:45:30

FsTutorial/MultiModalDtiIndividual_tktools . . . 7 matches
...s to give you experience with the integration of Diffusion Tensor Imaging (DTI) with FreeSurfer. The data were collected at MGH as part of the MIND. = DTI Basics = It is assumed t...

6.6k - rev: 27 (current) last modified: 2014-01-28 16:27:11

FsTutorial/GroupAnalysisDng . . . 7 matches
...tutorial is designed to introduce you to the "command-line" group analysis stream in FreeSurfer (as opposed to QDEC which is GUI-driven), including correction for multiple comparis...

12.2k - rev: 14 (current) last modified: 2009-01-17 21:10:16

FsFastFunctionalConnectivityWalkthrough . . . 7 matches
...ased analysis documentation as found in [[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.fsfast.ppt|FS-FAST powerpoint]] and the [[http://surfer.nmr.mgh.harvard.edu/fswiki/F...

7.2k - rev: 45 (current) last modified: 2024-01-16 14:11:01

FileFormats . . . 7 matches
...[[FreeSurferWiki|top]] = FreeSurfer File Formats = FreeSurfer creates its own file formats for storing and manipulating volumetric, surface and transform data, including mgh, mgz,...

1.2k - rev: 26 (current) last modified: 2015-10-26 12:34:13

CorticalParcellation_DU15NET . . . 7 matches
...bral network organization. To access the DU15NET atlases - please click on [[https://freesurfer.net/fswiki/CorticalParcellation_DU15NET?action=AttachFile&do=get&target=DU15NET.zip|...

8.6k - rev: 95 (current) last modified: 2024-04-02 11:32:59

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