Plugin type: 2dimage/filter
This program evaluates the pixel-wise median of the absolute values of the gauss filtered 2nd order temporal derivative of a series of images. In addition, it can be used to output the time-intensity curve of a given pixel.The program supports slice-wise spacial pre-filtering by giving additional filters as free parameters (filter/2dimage).
input segmentation set
output image name. For supported file types see Plugin type: 2dimage/io
Skip files at the beginning
Enlarge cropbox by number of pixels
crop image before running statistics
gauss filter width for moothing the gradient
intensity time curve output file
intensity time curve output pixel coordinates
verbosity of output, print messages of given level and higher priorities. Supported priorities starting at lowest level are:
|info:||Low level messages|
|trace:||Function call trace|
|fail:||Report test failures|
|fatal:||Report only fatal errors|
print copyright information
print this help
print a short help
print the version number and exit
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 median of the 2nd order derivative of the series given in segmentation set segment.set after filtering with a Gaussian of width 3. In addition write the time intensity curve of pixel <128,64> to curve.txt.
mia-2dseries2dordermedian -i segment.set -o gradmedian.exr -g 1 --itc-file curve.txt --itc-loc "<128,64>"