Name

mri_ca_register - generates a multi-dimensional talairach transform from a gca file and talairach.lta file

Synopsis

mri_ca_register <invol> <template> <outvol>

Arguments

Positional Arguments

invol	input volume
template	template in gca format
outvol	output volume in m3d format

Required Flagged Arguments

None

Optional Flagged Arguments

-tol	defines convergence of registration
-mask	specifies volume to use as a mask
-T	transform in lta format
-level	defines how many surrounding voxels will be used in interpolations, default is 6
-ri	allows reading of multiple intensity normalization

Outputs

outvol

multidimensional transform in m3d format

Examples

Example 1

mri_ca_register -levels 6 -mask subject1/mri/brain -T subject1/mri/transforms/talairach_one.lta subject1/mri/norm_one.mgh single_one.gca subject1/mri/transforms/talairach_one.m3d

Example 2

mri_ca_register -tol 1 -mask subject1/mri/brain -T subject1/mri/transforms/talairach_multi.lta subject1/mri/norm_multi.mgh multi_one.gca subject1/mri/transforms/talairach_multi.m3d

Links

FreeSurfer, FsFast

Methods Description

Fischl et al. (2004) - See "Nonlinear transform" section

Reporting Bugs

Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>

Author/s

BruceFischl

-  ⇤ ← Revision 2 as of 2004-08-26 16:00:30 → 
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+   ← Revision 7 as of 2018-01-26 14:46:03 → ⇥
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  Comment: Added methods description section with link to Fischl et al. 2004.
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-mri_ca_register - ?
+'''mri_ca_register''' - generates a multi-dimensional talairach transform from a gca file and talairach.lta file
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-mri_ca_register invol template outvol
+mri_ca_register <invol> <template> <outvol>
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-|| template || template volume ||
|| outvol || output volume ||
+|| template || template in gca format ||
|| outvol || output volume in m3d format ||
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-None
+|| -tol || defines convergence of registration ||
|| -mask || specifies volume to use as a mask ||
|| -T || transform in lta format ||
|| -level || defines how many surrounding voxels will be used in interpolations, default is 6 ||
|| -ri || allows reading of multiple intensity normalization ||
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-|| outvol  || ? ||

= Description =
description
+|| outvol  || multidimensional transform in m3d format ||
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-??
+mri_ca_register -levels 6 -mask subject1/mri/brain -T subject1/mri/transforms/talairach_one.lta subject1/mri/norm_one.mgh single_one.gca subject1/mri/transforms/talairach_one.m3d
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-??

= Bugs =
None

= See Also =
["othercommand1"], ["othercommand2"]
+mri_ca_register -tol 1 -mask subject1/mri/brain -T subject1/mri/transforms/talairach_multi.lta subject1/mri/norm_multi.mgh multi_one.gca subject1/mri/transforms/talairach_multi.m3d
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-{{{
description
description
}}}

= References =
["References/Lastname###"]
+[[http://www.nmr.mgh.harvard.edu/~fischl/reprints/sequence_independent_segmentation_reprint.pdf|Fischl et al. (2004) - See "Nonlinear transform" section]]