mia-2dmyocard-ica

Sysnopis:

mia-2dmyocard-ica {-i io} [ options ...]

Description:

This program is used to run a ICA on a series of myocardial perfusion images to create sythetic references that can be used for motion correction by image registration. If the aim is to run a full motion compensation then it is better to create a segmentation set and use mia-2dmyoica-nonrigid. If the input data is given by means of a segmentation set, then on can also use mia-2dmyocard-icaseries. This program is essentially used to test different options on how to run the ICA forreference image creation.

Options:

-i, --in-base=(input, required); io

input file name ofolloing pattern nameXXXX.ext X=numbers. For supported file types see Plugin type: 2dimage/io

--coefs=STRING

output mixing coefficients to this file

-o, --out-base=(output); string

output file name base

-t, --type=exr; set

output file type Supported values are:(@, BMP, DCM, EXR, JPEG, JPG, PNG, RAW, TIF, TIFF, V, VISTA, bmp, dcm, exr, jpeg, jpg, png, raw, tif, tiff, v, vista, )

-k, --skip=2; ulong

skip images at beginning of series

-e, --end=60; ulong

last image in series

-C, --components=0; ulong

nr. of components, 0=estimate automatically

-m, --strip-mean

strip mean image from series

-f, --save-features=STRING

save feature image

-p, --strip-periodic

strip only periodic component

-x, --max-ica-iterations=0; int

max ICA solver iterations

-n, --ica-normalize

ica_normalize feature images

--all-features=STRING

save all feature images to

-L, --LV-crop-amp=0; float

LV crop mask amplification, 0.0 = don't crop

-a, --auto-components

automatic esitmation of number of components based on correlation. Implies -m and -n (Experimental)

Help & Info

-V, --verbose=warning; dict

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
warning:Warnings
error:Report errors
debug:Debug output
message:Normal messages
fatal:Report only fatal errors
--copyright=(); bool

print copyright information

-h, --help=(); bool

print this help

-?, --usage=(); bool

print a short help

--version=(); bool

print the version number and exit

Processing

--threads=-1; int

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).

Example:

Evaluate the synthetic references from images imageXXXX.exr and save them to refXXXX.exr by using five independend components, mean stripping, normalizing, and skipping 2 images.

mia-2dmyocard-ica -i imageXXXX.exr -o ref -k 2 -C 5 -m -n

Author(s):

Gert Wollny