mia-2dsegment-ahmed1
Run a fuzzy c-means segmentation of a 2d image.
Usage
mia-2dsegment-ahmed -i
<in-file>
-o
<out-file>
[options]
Overview
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=(required, output); 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
Examples
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
Releases
5 releases since Debian 8 (Jessie); the text changed 4 times.