mia-2dsegseriesstats - Evaluate time-intensity curves in masked
regions of image series.
mia-2dsegseriesstats -o <original> -g <registered>
[options]
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.
- -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.
- -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
- --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).
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
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'.