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_kbsize

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

-floormin

A lower bound for ranges of data to include in statistic calculations.

-ceilmax

An upper bound for ranges of data to include in statistic calculations.

-rangemin,max

A lower and upper bound for the ranges of data to include in statistics.

-maskfilename.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