volume_stats

compute and print statistics for a MINC volume

volume_stats [options] <file1> [<file2> ...]

DESCRIPTION

volume_stats computes statistics on one or more MINC volumes and prints the results. It supports a wide range of statistical measures including volume, minimum, maximum, sum, mean, variance, standard deviation, median, majority, bimodal threshold, percentile threshold, entropy, and centre of mass. Voxels can be selected by intensity thresholds, mask volumes, slice orientation, and other criteria.

OPTIONS

-verbose

Print progress information.

-quiet

Do not print progress information.

-debug

Print debugging information.

-nocache

Do not use volume caching.

-transverse

Process slices in transverse orientation.

-sagittal

Process slices in sagittal orientation.

-coronal

Process slices in coronal orientation.

-dimorder

Specify dimension ordering.

-include_nan

Include NaN values in statistics.

-slice

Compute statistics on individual slices.

-ceil

Set the upper intensity threshold for voxel inclusion.

-floor

Set the lower intensity threshold for voxel inclusion.

-binvalue

Select voxels with a specific integer value.

-mask

Specify a mask volume for voxel selection.

-useWorldCoord

Use world coordinates for mask evaluation.

-maskbinvalue

Select mask voxels with a specific integer value.

-maskfloor

Set the lower threshold for the mask volume.

-maskceil

Set the upper threshold for the mask volume.

-maskrange

Set a range of values for the mask volume.

-all

Print all statistics (default).

-none

Print no statistics; use with specific statistic flags.

-volume

Print the volume of selected voxels.

-min

Print the minimum intensity value.

-max

Print the maximum intensity value.

-sum

Print the sum of intensity values.

-sum2

Print the sum of squared intensity values.

-mean

Print the mean intensity value.

-var

Print the variance of intensity values.

-stddev

Print the standard deviation of intensity values.

-median

Print the median intensity value.

-majority

Print the most frequently occurring intensity value.

-biModalT

Print the bimodal threshold separating two intensity classes.

-pctT

Print the percentile threshold.

-entropy

Print the entropy of the intensity distribution.

-CoM

Print the centre of mass of the selected voxels.

EXAMPLES

volume_stats input.mnc

volume_stats -mean -stddev -mask brain_mask.mnc input.mnc

volume_stats -none -median -floor 10 input.mnc

AUTHOR

John G. Sled - McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.

COPYRIGHTS

Copyright © 1998 by John G. Sled

SEE ALSO

volume_hist, mincstats, nu_correct