mia-2dmyocard-segment(1)

Usage

mia-2dmyocard-segment -i <in-file> -o <out-file> [options]

Overview

mia-2dmyocard-segment This program is work in progress

Options

File-IO

-i --in-file=(required, input); string: input perfusion data set

-o --out-file=(output, required); io: output myocardial mask
For supported file types see PLUGINS:2dimage/io

-f --save-features=(output); string: save ICA features to files with this name base

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

Ica

--fastica=internal: FastICA implementationto be used
For supported plugins see PLUGINS:fastica/implementation

-C --components=0: ICA components 0 = automatic estimation testing 4 and 5

--normalize: normalized ICs

--no-meanstrip: don't strip the mean from the mixing curves

-k --skip=2: skip images at the beginning of the series as they are of other modalities

-m --max-ica-iter=400: maximum number of iterations in ICA

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

PLUGINS: fastica/implementation

internal: This is the MIA implementation of the FastICA algorithm.

(no parameters)

itpp: This is the IT++ implementation of the FastICA algorithm.

(no parameters)

Examples

Example

mia-2dmyocard-segment Example

AUTHOR(s)

Gert Wollny

History

Debian 12 (Bookworm): the text shown here
Debian 11 (Bullseye)
Debian 10 (Buster)
Debian 9 (Stretch)
Debian 8 (Jessie)

--fastica since Debian 10 (Buster).