Provided by: mia-tools_2.4.7-13_amd64
NAME
mia-2dsegment-ahmed - Run a fuzzy c-means segmentation of a 2D image.
SYNOPSIS
mia-2dsegment-ahmed -i <in-file> -o <out-file> [options]
DESCRIPTION
mia-2dsegment-ahmed This program implements a variation of the paper: Mohamed N. Ahmed et. al, "A Modified Fuzzy C-Means Algorithm for Bias Field estimation and Segmentation of MRI Data", IEEE Trans. on Medical Imaging, Vol. 21, No. 3, March 2002, ⟨https://doi.org/10.1109/42.996338⟩ changes are: p=2, and exp
OPTIONS
-i --in-file=(input, required); io image to be segmented For supported file types see PLUGINS:2dimage/io -o --out-file=(output, required); io class probability images, the image type must support multiple images and floating point values For supported file types see PLUGINS:2dimage/io -a --no-of-classes=3 number of classes -b --bias-correct apply bias field correction -c --class-centres= initial class centers -s --spread=64 spread parameter describing the strength of mattar distinction 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).
PLUGINS: 2dimage/io
bmp BMP 2D-image input/output support. The plug-in supports reading and writing of binary images and 8-bit gray scale images. read-only support is provided for 4-bit gray scale images. The color table is ignored and the pixel values are taken as literal gray scale values. Recognized file extensions: .BMP, .bmp Supported element types: binary data, unsigned 8 bit datapool Virtual IO to and from the internal data pool Recognized file extensions: .@ dicom 2D image io for DICOM Recognized file extensions: .DCM, .dcm Supported element types: signed 16 bit, unsigned 16 bit exr a 2dimage io plugin for OpenEXR images Recognized file extensions: .EXR, .exr Supported element types: unsigned 32 bit, floating point 32 bit jpg a 2dimage io plugin for jpeg gray scale images Recognized file extensions: .JPEG, .JPG, .jpeg, .jpg Supported element types: unsigned 8 bit png a 2dimage io plugin for png images Recognized file extensions: .PNG, .png Supported element types: binary data, unsigned 8 bit, unsigned 16 bit raw RAW 2D-image output support Recognized file extensions: .RAW, .raw Supported element types: binary data, signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32 bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit tif TIFF 2D-image input/output support Recognized file extensions: .TIF, .TIFF, .tif, .tiff Supported element types: binary data, unsigned 8 bit, unsigned 16 bit, unsigned 32 bit vista a 2dimage io plugin for vista images Recognized file extensions: .-, .V, .VISTA, .v, .vista Supported element types: binary data, signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32 bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit
EXAMPLE
Run a 5-class segmentation over input image input.v and store the class probability images in cls.v. mia-2dsegment-ahmed -i input.v -a 5 -o cls.v
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'.