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|| [options] || -t, -v, -?, -u || | || [options] || -u, -t, -w, -a, -f, -v, -ct, -file, -projfrac, -projmm, -proj, -trans, -replace, -fix, -surf, -sdir, -?, --version, --help || |
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|| -t <filename> || specify parcellation table input file (default: none) || |
|| -sdir <directory> || use <directory> as subjects directory (default: $SUBJECTS_DIR)|| || -surf <filename> || use <filename> as surface (default: 'white') || || -fix <number> || fix topology of all labels smaller than <number> vertices (default=-1, do all)|| || -replace <number> || replace label <number> with deeper ones || || -trans <number_in> <number_out> || translate <number_in> to <number_out> || || -projmm <number> || project <number> millimeters along surface normal (default=0.0) || || -proj <number> || same as -projmm || || -projfrac <number> || project <number> percent along surface normal (default=0.5) || || -file <filename> || use <filename> as translation (default: 'cma_parcellation_colors.txt')|| || -ct <filename> || embed color table <filename> into output annotation file || |
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|| -f <number> || apply mode filter <number> times to parcellation (default=0) || || -a <number> || smooth surface <number> times (default=0) || || -w <number> || use window size <number> for sampling (default=7) || || -t <filename> || use thickness file <filename> (default: 'thickness') || || -u <number> || change largest connected unknown region to label <number> (default: don't change) || |
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|| -u || same as -? || |
|| --help || print help info || || --version || print version info || |
Navigation(children) Index TableOfContents
Name
mris_sample_parc -
Synopsis
mris_sample_parc [options] <subject name> <hemi> <parc name> <output annot>
Arguments
Positional Arguments
[options] |
-u, -t, -w, -a, -f, -v, -ct, -file, -projfrac, -projmm, -proj, -trans, -replace, -fix, -surf, -sdir, -?, --version, --help |
<subject name> |
the subject id |
<hemi> |
hemisphere: rh or lh |
<parc name> |
parcellation filename |
<output annot> |
annotation filename |
Required Flagged Arguments
<subject name> <hemi> <parc name> <output annot>
Optional Flagged Arguments
-sdir <directory> |
use <directory> as subjects directory (default: $SUBJECTS_DIR) |
-surf <filename> |
use <filename> as surface (default: 'white') |
-fix <number> |
fix topology of all labels smaller than <number> vertices (default=-1, do all) |
-replace <number> |
replace label <number> with deeper ones |
-trans <number_in> <number_out> |
translate <number_in> to <number_out> |
-projmm <number> |
project <number> millimeters along surface normal (default=0.0) |
-proj <number> |
same as -projmm |
-projfrac <number> |
project <number> percent along surface normal (default=0.5) |
-file <filename> |
use <filename> as translation (default: 'cma_parcellation_colors.txt') |
-ct <filename> |
embed color table <filename> into output annotation file |
-v <number> |
diagnostic level (default=0) |
-f <number> |
apply mode filter <number> times to parcellation (default=0) |
-a <number> |
smooth surface <number> times (default=0) |
-w <number> |
use window size <number> for sampling (default=7) |
-t <filename> |
use thickness file <filename> (default: 'thickness') |
-u <number> |
change largest connected unknown region to label <number> (default: don't change) |
-? |
print usage info |
--help |
print help info |
--version |
print version info |
Outputs
<output annot> |
parcellation annotation output file |
Example
mris_sample_parc
Bugs
None
See Also
["mris_ca_train"] ["mris_ca_label"]
Links
CorticalParcellation, FreeSurfer, FsFast
References
Reporting Bugs
Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>