NOTE: Some newer, more broadly applicable plugins can be found
here
The following are some plugins that I have written for
OsiriX
which is a fantastic DICOM image viewer for Mac OS X.
To install plugins, expand the .tar files (tar -xvf, or
use Stuffit Expander) and move the .plugin directory to your
Library/Application Support/OsiriX/Plugins
directory. Then run OsiriX.
RGPhaseCorr
RGPhaseCorr.plugin
is a plugin implentation for taking I & Q images
from a FIESTA acquisition and separating water and fat
using phase-sensitive SSFP
(See MRI Tools site).
This can also be used for 2-point Dixon imaging
(Moriguchi et al., Magn Reson Med. 2004 Dec;52(6):1342-50)
and probably for phase-sensitive inversion recovery imaging
(Kellman et al., Magn Reson Med. 2002 Feb;47(2):372-83).
Example:
Download the sample DICOM images
of a bottle containing water and oil, extract the tar
archive, then import the DICOM images into OsiriX.
Open a 2D/3D viewer of the series, and try the plugin.
The phase corrected data can also be read into matlab using
readcfloats.m.
ImageToMatlab
After selecting a series and the 2D/3D viewer,
ImageToMatlab.plugin
will save a simple image file that you can read
into Matlab using
read3dfloats.m.
(The file format is x,y,z size (short int) followed
by pixel values (float32) so is easy enough
to read with other code too.)
Matlab to Osirix
It is quite easy to transfer 3D images from
Matlab to Osirix. Here are
simple instructions and a simple script,
im2osirix.m.
