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| <<Navigation(children)>> '''Index''' <<TableOfContents>> |
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| mri_register - ? | mri_register - high-dimensional alignment with canonical atlas |
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| mri_register [in brain] [ref brain] [output file name] | mri_register [options] invol refvol outvol |
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| = Positional Arguments = || [in brain] || ? || || [ref brain] || ? || || [output file name] || ? || |
= Arguments = == Positional Arguments == || invol || input volume || || refvol || reference volume || || outvol || output volume || |
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| = Required Flagged Arguments = none |
== Required Flagged Arguments == None |
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| = Optional Flagged Arguments = none |
== Optional Flagged Arguments == || -align || || || -T lta || || || -mask brainmask || || || -invert-and-save gcamfile || || || -dist distance || || || -regularize regularize || || || -regularize-mean regularizemean || || || -scale_smoothness smoothness || || || -nobright || || || -renormalize || || || -read_lta || || || -smoothness smoothness || || || -samples samples || || || -nsmall nsmall || || || -fixed || || || -optimal || || || -noneg noneg || || || -wm || || || -min_avgs <n> || || || -tl || || || -relabel relable || || || -relabel_avgs relable_avgs || || || -reset_avgs reset_avgs || || || -vf vf_fname || || || -diag diagfname || || || -tr tr || || || -te te || || || -example T1 seg || || || -<no>bigventricles || || || -uncompress || || || -secondpassrenorm || || |
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| || output file name || ? || | || outvol || output volume|| |
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| description | ?? |
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| command foo -i f -o out description |
{{{ mri_ca_register -align -mask brainmask.mgz \ -T transforms/talairach.lta norm.mgz \ $FREESURFER_HOME/average/RB_all_2006-02-15.gca \ transforms/talairach.m3z }}} |
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| command foo -i f -o out -f fvalue description |
?? |
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| ["othercommand1"], ["othercommand2"] | [[othercommand1]], [[othercommand2]] |
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| description description |
?? |
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| ["References/Lastname###"] | [[References/Lastname###]] |
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| JaneSmith | BruceFischl |
Index
Contents
Name
mri_register - high-dimensional alignment with canonical atlas
Synopsis
mri_register [options] invol refvol outvol
Arguments
Positional Arguments
invol |
input volume |
refvol |
reference volume |
outvol |
output volume |
Required Flagged Arguments
None
Optional Flagged Arguments
-align |
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-T lta |
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-mask brainmask |
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-invert-and-save gcamfile |
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-dist distance |
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-regularize regularize |
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-regularize-mean regularizemean |
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-scale_smoothness smoothness |
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-nobright |
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-renormalize |
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-read_lta |
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-smoothness smoothness |
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-samples samples |
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-nsmall nsmall |
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-fixed |
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-optimal |
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-noneg noneg |
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-wm |
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-min_avgs <n> |
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-tl |
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-relabel relable |
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-relabel_avgs relable_avgs |
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-reset_avgs reset_avgs |
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-vf vf_fname |
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-diag diagfname |
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-tr tr |
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-te te |
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-example T1 seg |
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-<no>bigventricles |
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-uncompress |
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-secondpassrenorm |
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Outputs
outvol |
output volume |
Description
??
Examples
Example 1
mri_ca_register -align -mask brainmask.mgz \
-T transforms/talairach.lta norm.mgz \
$FREESURFER_HOME/average/RB_all_2006-02-15.gca \
transforms/talairach.m3z
Example 2
??
Bugs
None
See Also
Links
Methods Description
??
References
Reporting Bugs
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>