NAME

       mia-2dsegseriesstats - Evaluate time-intensity curves in masked regions of image series.

SYNOPSIS

       mia-2dsegseriesstats -o <original> -g <registered> [options]

DESCRIPTION

       mia-2dsegseriesstats  This program is used evaluate various time-intensity curves over a series of images
       given by a segmentation set. Specifically, the program is taylored to evaluate  average  intensities  and
       variations of sections the left ventricle myocardium. The segmentation set must contain the segmentations
       for all slices that will be accessed during evaluation.

OPTIONS

              -o --original=(input, required); string
                     original segmentation set

              -g --registered=(input, required); string
                     registered segmentation set

              -k --skip=2
                     images  to skip at the begin of the series, if (k < 0) use RV peak of the registered set if
                     set

              -r --reference=-1
                     reference frame for automatic curve extraction. Negative values can  be  used  to  indicate
                     specific values (if given in the segmentation set):
                        -3: Middle of the series
                        -2: prefererred reference
                        -1: LV peak
                        if  any  of  the  above is not available or the value is < -3, use the last frame of the
                     series.

              -c --curves=(output); string
                     region average value curves, The output files each comprises a table in  plain-text  format
                     that  contains  three  columns  for  each  section  of  the LV myocardium: The first column
                     contains the values obtained by using the original segmentation of  the  reference  on  all
                     images  of  the  original  series,  the  second  column contains the values obtained by the
                     registered segmentation of the reference on all images of the registered  series,  and  the
                     third  column  contains the values obtained by using the segmentations of each slice on the
                     original images.

              -v --varcurves=(output); string
                     region variation values, same formt as described above.

              -n --nsections=0
                     number of sections to use, 0=use as segmented, otherwise Otherwise, the  LV  myocardium  is
                     divided into n sections that enclose equal angles starting at the right ventricle insertion
                     point moving clock-wise using the LV center as angular point.

   Help & Info
              -V --verbose=warning
                     verbosity  of  output,  print  messages  of  given  level  and higher priorities. Supported
                     priorities starting at lowest level are:

                        trace ‐ Function call trace
                        debug ‐ Debug output
                        info ‐ Low level messages
                        message ‐ Normal messages
                        warning ‐ Warnings
                        fail ‐ Report test failures
                        error ‐ Report errors
                        fatal ‐ Report only fatal errors

                 --copyright
                     print copyright information

              -h --help
                     print this help

              -? --usage
                     print a short help

                 --version
                     print the version number and exit

   Processing
                 --threads=-1
                     Maxiumum number of threads to use for processing,This number should be lower  or  equal  to
                     the number of logical processor cores in the machine. (-1: automatic estimation).

EXAMPLE

       Evaluate  the  two  curve  typed for 12 sections from segemntation sets orig.set and reg.set skipping the
       first 2 frames. The output will be written to curves.txt and varcurves.txt respectively.

       mia-2dsegseriesstats -i org.set -g reg.set -c curves.txt -v varcurves.txt -n 12 -k 2

AUTHOR(s)

       Gert Wollny

COPYRIGHT

       This software is Copyright (c) 1999‐2015 Leipzig, Germany and Madrid, Spain.  It comes  with   ABSOLUTELY
       NO  WARRANTY   and   you  may redistribute it under the terms of the GNU GENERAL PUBLIC LICENSE Version 3
       (or later). For more information run the program with the option '--copyright'.

USER COMMANDS                                        v2.4.7                              mia-2dsegseriesstats(1)