v3mip − 3D image projection and axis transformation

v3mip [if=<infile>] [of=<outfile>] [m=] [-c] [-s] [-a] [-x] [-e] [-i] [n=] [th=] [-f] [-p] [-r] [-t] [-y] [-v]

v3mip interpolates input 3D image to isotropic space and transforms it to different views of interest(coronal or sagital) with or without projection. Input image is always assumed to be in axial view. Magnification scale for the z dimension can be set using the m= option or it can be directly calculated from the history header of the input image which contains x,y and z resolutions information besides other things. If this feature is not needed (-t) switch should be set to avoid calculation of magnification scale from the history header. This works only for DICOM derived images. The input 3D image can be transformed in to coronal and sagittal views using -c and -s options respectively after interpolating it in to isotropic resolution. If (-a) option is specified, the input image will be interpolated to isotropic space without change of orientation . Projection options are also available to lump together specified number of frames in different ways. The number of frames is specified using n= option (default being n=2). Maximum intensity projection(MIP) is done using -x option whereas minimum intensity projection can be done using -i option. (-e) option is dedicated to averaging intensity projection. Rolling type projection can be selected using (-r) option. A threshold parameter can be specified(th= value) to avoid considering pixels with very low intensity in the averaging projection operation. If the -y option is selected the thresholding value is set as one above the image minimum value, assuming the the minimum is the padding value for the voxels outside the reconstruction domain; when the -y option is selected, the th= value is ignored. The (-p) option is also available to project all the frames in the input image.

Input 3D image should always be in axial view to transform it to other views.

if=

input file name (accepts any type).

of=

output file name (can be enforced to be float type using -f flag)

m=

explicitly specify the magnification scale, otherwise the program automatically calculates the magnification scale from the image history info to make it an isotropic resolution to in-plane resolution.

n=

number of frames projected using any choice of operation (MIP,average.....) (default is 2)

-v

selects the verbose mode to print information about intermediate results

-c

selects coronal orientation.

-s

select es sagittal transformation

-a

axial view interpolation option

-x

MIP intensity projection

-i

Minimum intensity projection

-e

average intensity projection (default projection type)

th=

threshold value to avoid very small gray values during averaging

-y

sets the thresholding value to one above the image minimum and overrides any th= values that might have been entered

-f

force output file to be of float type

-p

project all frames

-r

rolling type projection

-t

avoid calculation of magnification scale from the history header

A.Asmamaw and A.Reeves