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). De- fault is 4 MB. -check_dimensions Check that all input files have matching sampling in world dimen- sions (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 calcula- tions. -ceil max An upper bound for ranges of data to include in statistic calcula- tions. -range min,max A lower and upper bound for the ranges of data to include in statis- tics. -mask filename.mnc Name of file to be used for masking data included in statistic cal- culations. 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 rep- resent a discrete class of possible values. The maximum label value is currently limited to ten (10). Prints the Dice similarity statis- tic 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 (C) 2010 by Andrew Janke $Date: 2010-03-02 12:12:20 $ MINCCMP(1)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | General options | Volume range options | Basic statistics | Generic options for all commands: | AUTHOR | COPYRIGHTS
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