VPLFITVisionX V4
NAME
vplfit − VisionX program for segmenting the juxtapleural pulmonary nodules
NAME SYNOPSISvplfit if=<infile> sf=<surfacefile> of=<outfile> ic=<COM estimate> nm=<surface normal> bw=<border around the image> [tk=<thickness of surface drawn>] [-pl] [-qd] [-cu] [-qr] [-rc] [-cp] [-v] [-neg] [-od] [-cb] [-rd]
DESCRIPTIONVplfit segments the juxtapleural pulmonary nodule from a region containing the thoracic wall and the nodule by using linear regression to find the pleural surface function. Given the surface image, a location inside the nodule (specified by [ic] argument) and a surface normal estimate ([nm]), the program estimates center of mass of the combined thoracic wall nodule region and uses it to identify a nodule surface point. The coordinate system is then rotated so the z coordinate is parallel to the surface normal and origin is at the nodule surface point. Surface estimates are made by using linear regression on a set of points outside of a sphere centered at a nodule surface point (to exclude the nodule points from the surface estimate). Initial radius is set to the shortest distance from the nodule surface point to a surface point at the edge of the image. Initial radius can also be set manually using the [ir=] argument. The sphere raidus is reduced to 0, a diagnostic is used to measure find the optimum radius. The resulting surface is rotated and used to separate the nodule from the thoracic wall.
OPTIONS|
if= |
input file name -- a binary image where a region containing the thoracic wall and the nodule is set to 255 and the lung parenchyma is set to 0 | ||
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sf= |
detected surface point image -- points on the boundary of the thoracic wall/nodule regions are set to 255 the rest are set to 0. | ||
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of= |
output image: the nodule region is set to 255 the rest of the points are set to zero.(requires some post processing) | ||
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ic= |
coordinates of a point inside the nodule (default: center of the image) | ||
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nm= |
average surface normal in the form <x,y,z> | ||
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bw= |
border of zero pixels around the image (should be the same as the argument to vsborder, which removes the irrelevant voxels from the morphologically filtered image (default: 4) | ||
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ir= |
initial subset radius (default: set automatically) | ||
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tk= |
thickness of the surface drawn if the -od option is set if -od is not set than a layer of width "tk" around the surface function is excluded from the nodule segmentation (default 2) | ||
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-pl |
use planar surface estimate | ||
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-qd |
use quadratic surface estimate | ||
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-cu |
use cubic surface estimate | ||
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-qr |
use fourth order polynomial estimate -rc print the diagnostic values at each subset radius (this is the squared residual of added points diagnostic used for picking the subset) -cp print Cook’s diagnostic values at each subset radius -v verbose -rd debug option |
vsfit: the script that uses this program
AUTHORY. Mulman