Provided by: minc-tools_2.3.00+dfsg-2_amd64 
NAME
minccmp - compare one or more minc file using comparator operators
SYNOPSIS
minccmp [<options>] <in1.mnc> <in2.mnc> [<inn.mnc> ...]
DESCRIPTION
minccmp will calculate simple statistical measures between two minc files or more by comparing all
subsequent files to the first. The results for each subsequent file are then returned in order. By
default all statistics are calculated. If specifitc statistics are requested via a command-line option,
then only the requested statistics are printed.
A very useful feature of this program is the ability to restrict the set of voxels included in the
statistic calculation, either by restricting the range of included values (-floor, -ceil or -range), or
by using a mask file (-mask) with a restricted range.
The comparison statistics available in minccmp are given below. Note that two of these (-xcorr and
-zscore) are a very close approximation to what is used in minctracc.
OPTIONS
Note that options can be specified in abbreviated form (as long as they are unique) and can be given
anywhere on the command line.
General options
-clobber
Overwrite an existing file.
-noclobber
Don't overwrite an existing file (default).
-debug Dump a lot of extra information (for when things go haywire).
-verbose
Print out extra information (more than the default).
-quiet Print out only the requested numbers
-max_buffer_size_in_kb size
Specify the maximum size of the internal buffers (in kbytes). Default is 4 MB.
-check_dimensions
Check that all input files have matching sampling in world dimensions (default).
-nocheck_dimensions
Ignore any differences in world dimensions sampling for input files .
Volume range options
-floor min
A lower bound for ranges of data to include in statistic calculations.
-ceil max
An upper bound for ranges of data to include in statistic calculations.
-range min,max
A lower and upper bound for the ranges of data to include in statistics.
-mask filename.mnc
Name of file to be used for masking data included in statistic calculations.
Basic statistics
-all Compute all statistical measures. This is the default.
-ssq Print the Sum Squared Difference between two input files
SSQ = Sum( (A-B)^2 )
-rmse Print the Root Mean Squared Error between two input files
RMSE = sqrt( 1/n * Sum((A-B)^2))
-xcorr Print the Cross Correlation between two input files
XCORR = Sum((A*B)^2) / (sqrt(Sum(A^2)) * sqrt(Sum(B^2))
-zscore
Print the z-score difference between two input files
ZSCORE = Sum( |((A - mean(A)) / stdev(A)) -
((B - mean(B)) / stdev(B))| ) / n
-similarity
Calculate the confusion matrix, assuming that the volume values represent a discrete class of
possible values. The maximum label value is currently limited to ten (10). Prints the Dice
similarity statistic as well as specificity, sensitivity, accuracy, and kappa for each class and
for the overall volumes.
Generic options for all commands:
-help Print summary of command-line options and exit.
-version
Print the program's version number and exit.
AUTHOR
Andrew Janke
COPYRIGHTS
Copyright © 2010 by Andrew Janke
$Date: 2010-03-02 12:12:20 $ MINCCMP(1)