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||-l <label file>              || limit calculations to specified label||
||-t <thickness file>          || use specified file for computing thickness statistics ||
||-a <annotation file>         || compute properties for each label in the annotation file separately ||
||-b                           || tabular output ||
||-f <tablefile>      ||table output to tablefile (different format than -b). Must use -a or -l options to spec input.||
||-log <logfile>      || Write stats to file named log ||
||-nsmooth <#>        || Smooth thicknessmap # of iterations before using it ||
||-c <ctab file>               || Output annotation files's colortable to text file||
||-l <label file> || limit calculations to specified label||
||-t <thickness file> || use specified file for computing thickness statistics ||
||-a <annotation file> || compute properties for each label in the annotation file separately ||
||-b || tabular output ||
||-f <tablefile> ||table output to tablefile (different format than -b). Must use -a or -l options to spec input.||
||-log <logfile> || Write stats to file named log ||
||-nsmooth <#> || Smooth thicknessmap # of iterations before using it ||
||-c <ctab file> || Output annotation files's colortable to text file||
||-noglobal || Do not compute global brain stats ||
||-th3 || Compute vertex-wise volume by dividing each obliquely truncated trilateral pyramid into three tetrahedra ||
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[[mris_anatomical_stats]] computes a number of anatomical properties mris_anatomical_stats computes a number of anatomical properties
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?? {{{
mris_anatomical_stats -l lh.cortex.label -b subjid lh
}}}

Index

Name

mris_anatomical_stats - measures a number of anatomical properties

Synopsis

mris_anatomical_stats [options] <subjectname> <hemi> [<surfacename>]

Arguments

Required Positional Arguments

<subjectname>

subject name

<hemi>

hemisphere

Optional Positional Arguments

<surfacename>

surface name

Required Flagged Arguments

none

Optional Flagged Arguments

-i <low thresh> <hi thresh>

only consider thicknesses in the specified range.

-l <label file>

limit calculations to specified label

-t <thickness file>

use specified file for computing thickness statistics

-a <annotation file>

compute properties for each label in the annotation file separately

-b

tabular output

-f <tablefile>

table output to tablefile (different format than -b). Must use -a or -l options to spec input.

-log <logfile>

Write stats to file named log

-nsmooth <#>

Smooth thicknessmap # of iterations before using it

-c <ctab file>

Output annotation files's colortable to text file

-noglobal

Do not compute global brain stats

-th3

Compute vertex-wise volume by dividing each obliquely truncated trilateral pyramid into three tetrahedra

Outputs

Tabular output includes the following:

Data column

units

Comments

Structure Name

NA

Number of Vertices

unitless

Surface Area

mm^2

total surface area

Gray Matter

Volume mm

total gray matter volume

Average Thickness

mm

average cortical thickness

Thickness Std Dev

mm

+- standard error (mm)

Integrated Rectified Mean Curvature

mm^-1

Integrated Rectified Gaussian Curvature

mm^-2

Folding Index

unitless

a la Van Essen

Intrinsic Curvature Index

unitless

a la Van Essen

Description

mris_anatomical_stats computes a number of anatomical properties

Examples

Example 1

mris_anatomical_stats -a subjid/label/lh.aparc.annot -b subjid lh

Example 2

mris_anatomical_stats -l lh.cortex.label -b subjid lh

Bugs

none

See Also

mris_curvature_stats,

Links

FreeSurfer

Methods Description

??

References

References/Lastname###

Reporting Bugs

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

Author/s

BruceFischl

mris_anatomical_stats (last edited 2017-11-30 18:18:02 by MorganFogarty)