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PreviousReleaseNotes . . . 103 matches
...a 18, Ubuntu 13, and Gentoo 64 glibc crashes (seg-faults on any binary). * fix for recon-all tal-check failure-threshold sensitivity. === Known Issues === * On Mac OSX platfor...

94.0k - rev: 4 (current) last modified: 2019-08-21 12:41:42

FsTutorial/MorphAndRecon . . . 42 matches
... Reconstruction (90 minutes of exercises)'''+~ ---- <<TableOfContents>> === 1.0 The recon-all command and alternatives === The [[recon-all]] script is used to process raw scan da...

31.2k - rev: 48 (current) last modified: 2021-09-22 11:39:46

OtherUsefulFlags . . . 13 matches
... == FreeSurfer Tutorial: Useful recon-all flags. == This page extends ReconAllDevTable. The following flags can be used in conjunction with individual steps or the entire proce...

29.7k - rev: 135 (current) last modified: 2017-04-25 13:53:01

ReconAllDevTable . . . 8 matches
... == FreeSurfer Tutorial: Process Flow == This table shows the recon-all steps for the current '''dev''' version of FreeSurfer [[ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfe...

18.2k - rev: 277 (current) last modified: 2017-02-17 11:53:55

ReconAllTableStableV5.3 . . . 6 matches
... == FreeSurfer Tutorial: Process Flow == This table shows the recon-all steps for stable version 5.3 of FreeSurfer. See also the OtherUsefulFlags for other recon-all options. |...

13.7k - rev: 3 (current) last modified: 2015-05-08 15:10:28

ReconAllTableStableV5.1 . . . 6 matches
... == FreeSurfer Tutorial: Process Flow == This table shows the recon-all steps for stable version 5.1 of FreeSurfer. See also the OtherUsefulFlags for other recon-all options. ||'...

13.4k - rev: 7 (current) last modified: 2012-03-26 16:45:23

ReconAllTableStableV5 . . . 6 matches
... == FreeSurfer Tutorial: Process Flow == This table shows the recon-all steps for version 5.0 of FreeSurfer. See ReconAllDevTable for the most current development-code process flo...

13.4k - rev: 3 (current) last modified: 2012-03-26 16:47:16

ReconAllStableTablev4 . . . 6 matches
... == FreeSurfer Tutorial: Process Flow == This table shows the recon-all steps for the latest '''stable''' version of FreeSurfer, '''v4.0.2'''. See ReconAllDevTable for the dev ve...

15.1k - rev: 8 (current) last modified: 2012-03-26 16:47:44

FreeSurferFill . . . 3 matches
...chment:CCsag.jpg}} 1. Copy the MNI coordinates to the command line for either [[recon-all]] -cc-xyz .... or in [[mri_fill]] -C .... Alternatively seed point can be giv...

2.1k - rev: 9 (current) last modified: 2008-04-29 11:46:03

mri_strip_skull . . . 2 matches
...iption = = Examples = == Example 2 == description = Bugs = None = See Also = [[recon-all-nmr]], [[recon-all]] = Links = FreeSurfer, FsFast = Methods Description = = Refe...

1.7k - rev: 2 (current) last modified: 2008-04-29 11:45:16

FreeSurferCommands . . . 2 matches
... == Recon-all == * [[recon-all]] * Commands, in chronological order: * [[mri_convert]] * [[mri_robust_template]] * [[mri_nu_correct.mni]] * [[talairach]] * [[mri_norm...

1.7k - rev: 23 (current) last modified: 2011-09-19 15:19:48

trac-all . . . 1 match
...see 1.3 below). The default is to use the whole-brain anatomical segmentation from [[recon-all]] as the mask in all subsequent steps. 1.2 '''Image quality assessment''' . Thi...

36.4k - rev: 176 (current) last modified: 2021-06-16 18:46:04

make_average_volume . . . 1 match
....mgz, brain.mgz, and T1.mgz which will be averages of subjects 1-4. = See Also = [[recon-all]], [[make_final_surfaces]], [[morph_subject]] = Reporting Bugs = Report bugs to fre...

1.4k - rev: 1 (current) last modified: 2017-12-19 10:41:16

make_average_subject . . . 1 match
...e will be blurry. = See Also = [[make_average_volume]], [[make_average_surface]], [[recon-all]], [[make_final_surfaces]], [[morph_subject]] = Reporting Bugs = Report bugs to fre...

3.4k - rev: 6 (current) last modified: 2017-12-19 10:19:48

Tracula . . . 1 match
...fusion MRI data with TRACULA, you will have to analyze your subjects' T1 data with [[recon-all]] and make sure that they have a good-quality '''mri/aparc+aseg.mgz'''. In addition ...

15.5k - rev: 118 (current) last modified: 2021-11-17 14:43:35

FreeSurferTalairach . . . 1 match
...from one person to the next. The first step is to look at the result of mritotal ([[recon-all]] leaves a '''mritotal.log''' in $subjid/scripts directory). At the end of this log,...

3.7k - rev: 15 (current) last modified: 2021-09-22 11:37:28