Results 176 - 200 of 362 results out of about 3772 pages. (1.14 seconds)
- ChildBrainManualEdits . . . 3 matches
- ...
Below is a summary of editing strategies that we, the FreeSurfer team, have found useful and successful on our data sets of children of 4-6 years of age. We emphasize that these a...
- BrainVolStatsFixed . . . 3 matches
- ...try Stats and Global Measure of Volume =
On Apr 2, 2019, an error was discovered in FreeSurfer version 6 in the computation of some of the [[https://surfer.nmr.mgh.harvard.edu/fsw...
- tkmedit-sess . . . 2 matches
- ...an anatomical volume. TkMedit is started by one of three methods: launching it from FreeSurfer with the EditVol button, using
the tkmedit-sess script, and calling it from the comm...
- tkmedit . . . 2 matches
- ...y-reg register.dat}}}
= See Also =
TkMeditGuide
= Author =
KevinTeich
= Links =
FreeSurfer, TkMedit, TkSurfer
= Description =
TkMedit is the main volume viewer and editor fo...
- scuba . . . 2 matches
- ..., medium green, and full blue. ||
= Description =
scuba is a unified viewer for the FreeSurfer package. It replaces tkmedit and tksurfer. It displays volumes and surfaces in a com...
- mrisp_paint . . . 2 matches
- ...file is usually a tif file (not a picture image; tif format is just used to contain !FreeSurfer array data). Template may contain more than one parameter, typically 3 as in the sta...
- mris_glm . . . 2 matches
- ...= Arguments =
== Flagged Arguments ==
=== Raw Data Input Options ===
||--fsgd fname||FreeSurfer Group Descriptor File||
||--design fname||name of design matrix (ascii)||
||--surfme...
- mris_ca_label . . . 2 matches
- ...d from the cortical model (sulcus and curvature). Besides the atlases provided with FreeSurfer, new ones can be prepared using [[mris_ca_train]]).
= Synopsis =
mris_ca_label [opt...
- mri_watershed . . . 2 matches
- ...o the intermediate result.
= Bugs =
None
= See Also =
[[mri_normalize]]
= Links =
FreeSurfer, FsFast
= Methods Description =
{{{
The "watershed" segmentation algorithm was used...
- mri_vol2roi . . . 2 matches
- ...needed when using a label.||
|| --label labelfile ||path to label file || Path to FreeSurfer label file. Make sure to give full path. The label file has, among other things, xyz...
- mri_register . . . 2 matches
- ...egister -align -mask brainmask.mgz \
-T transforms/talairach.lta norm.mgz \
$FREESURFER_HOME/average/RB_all_2006-02-15.gca \
transforms/talairach.m3z
}}}
== Example 2 ...
- mri_mergelabels . . . 2 matches
- ...rtex number will be -1.
= Bugs =
None
= See Also =
[[mri_label2vol]] [[mri_label2label]]
= Links =
FreeSurfer
= Reporting Bugs =
Report bugs to <freesurfer@nmr.mgh.harvard.edu>...
- mri_info . . . 2 matches
- ...rd.edu/~rudolph/software/vox2ras/doc/vox2ras.pdf|this technical report]].
= Links =
FreeSurfer
= References =
None
= Reporting Bugs =
Report bugs to <freesurfer@nmr.mgh.harvard....
- mri_gcut . . . 2 matches
- ...sholding. For more details, see [1]
When the algorithm is applied in the context of FreeSurfer pipeline, eg. T1.mgz, one can choose to use voxels with intensity 110 in T1.mgz as t...
- mri_fwhm . . . 2 matches
- ...his program || ||
||--version ||print out version and exit || ||
= Description =
FreeSurfer program to estimate the global Gaussian smoothness of a multi-frame, volume-based da...
- mri_cc . . . 2 matches
- ... should be volume.
To make the subdivisions stand-out, you would need to modify the FreeSurferColorLUT.txt. This will work:
||251|| CC_Posterior || 255||0||64||0||
||252||C...
- mksubjdirs . . . 2 matches
- ... ==
= Outputs =
= Description =
mksubjdirs- makes a directory format designed for Freesurfer to navigate and find the necessary files.
Notes:
Subject
/ \
bem label morph...
- func2roi-sess . . . 2 matches
- ... flag followed by
the label name. The label file can also be stored in the subject's
FreeSurfer anatomical directory in a subdirectory called label;
this type is specified with '''...
- TkMeditGuide/TkMeditIntroduction . . . 2 matches
- ...]]||Continue to [[../TkMeditGeneralUsage| TkMeditGeneralUsage]]||
= Introduction =
FreeSurfer software is frequently updated and improved. The current version used at MGH-NMR Cen...
- ThicknessRepeatibility . . . 2 matches
- ...ckness_reliability.pdf|validation studies of cortical thickness measurement]] using !FreeSurfer.
'''Note: The method described here is deprecated and was used on independently pro...
- Scuba . . . 2 matches
- ...Scuba is a visualization program in the FreeSurfer package. It is meant for merging 2D volume and 3D surface visualization. It is still in early development and only available in t...
- SamsegTesting . . . 2 matches
- ...e existing RB FS atlas, is conducted to compare its performance against the existing FreeSurfer v6.0 subcortical segmentation processing stream, and manual segmentations. Initial ...
- ReconAllChanges . . . 2 matches
- ... DATA ==
From here on any data that has been previously processed, to any extent, by FreeSurfer will be referred to as a ''legacy data set''.
*any ''legacy data set'' that is cur...
- MulitModalIntegration . . . 2 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 ...
- MartinReuter . . . 2 matches
- ...inalTutorial]] - a tutorial on running, post-processing and editing
* '''Cite''': [[FreeSurferMethodsCitation]] - please cite our papers if you use this software
* '''eTIV''': [[...