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MINCCMP(1)                     MINC User's Guide                    MINCCMP(1)

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 subseqent 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

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 (C) 2010 by Andrew Janke

                         $Date: 2010-03-02 12:12:20 $               MINCCMP(1)