WASSR - Usage
WASSR is used to estimate the absolute water frequency in each voxel, allowing proper centring of Z-spectra in CEST analysis. Running the program without any arguments produces the following output:
WASSR: ERROR: not enough arguments.
Usage: WASSR [options] image1 [image2 image3 ... imageN]
-2,--2-D Process
slice-by-slice,
rather than in 3-D.
-?,--help Displays this help
message.
-c,--contiguous Specify that the
different frequency
offsets are
contiguous in the
input image(s).
-f,--freq-off <Off1,Off2,..,Offn | FirstOff:LastOff:nOff> Specifies the
frequency offsets
in ppm. By default,
an attempt is made
to read these from
the image header.
-m,--mask <image> Mask the output
images using the
image mask <image>.
-M,--roi-mask <roi-file> Mask the output
images using the
ROI mask
<roi-file>.
-n,--n-slices <integer> Specify the number
of physical slice
locations. Default:
1.
-r,--range <range> Specifies the
search range for B0
inhomogeneity, in
ppm. Default: 1.0
-s,--smoothness <smoothness> Sets the forced
smoothness of the
B0 field. Possible
values are: Lowest,
Medium, Highest.
Default: Lowest.
-t,--threshold <number> Sets a threshold:
if pixels
intensities at a
given location are
below <number> in
all input images,
then the output is
set to zero in that
pixel location.
-v,--verbose Turns on verbose
reporting to
System.out.
-ver,--version Prints the software
build version, and
exits.