7.1.214. 3dproject

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Projection along cardinal axes from a 3D dataset Usage: 3dproject [editing options]

[-sum|-max|-amax|**-smax**] [-output root] [-nsize] [-mirror]
[-RL {all | x1 x2}] [-AP {all | y1 y2}] [-IS {all | z1 z2}]
[-ALL] dataset

Program to produce orthogonal projections from a 3D dataset.

-sum ==> Add the dataset voxels along the projection direction
-max ==> Take the maximum of the voxels [the default is -sum]

-amax ==> Take the absolute maximum of the voxels -smax ==> Take the signed maximum of the voxels; for example,

-max ==> -7 and 2 go to 2 as the projected value

-amax ==> -7 and 2 go to 7 as the projected value -smax ==> -7 and 2 go to -7 as the projected value

-first x ==> Take the first value greater than x
-nsize ==> Scale the output images up to ‘normal’ sizes
(e.g., 64x64, 128x128, or 256x256) This option only applies to byte or short datasets.
-mirror ==> The radiologists’ and AFNI convention is to display
axial and coronal images with the subject’s left on the right of the image; the use of this option will mirror the axial and coronal projections so that left is left and right is right.
-output root ==> Output projections will named
root.sag, root.cor, and root.axi [the default root is ‘proj’]
-RL all ==> Project in the Right-to-Left direction along
all the data (produces root.sag)
-RL x1 x2 ==> Project in the Right-to-Left direction from

x-coordinate x1 to x2 (mm) [negative x is Right, positive x is Left] [OR, you may use something like -RL 10R 20L

to project from x=-10 mm to x=+20 mm ]
-AP all ==> Project in the Anterior-to-Posterior direction along
all the data (produces root.cor)
-AP y1 y2 ==> Project in the Anterior-to-Posterior direction from

y-coordinate y1 to y2 (mm) [negative y is Anterior, positive y is Posterior] [OR, you may use something like -AP 10A 20P

to project from y=-10 mm to y=+20 mm ]
-IS all ==> Project in the Inferior-to-Superior direction along
all the data (produces root.axi)
-IS y1 y2 ==> Project in the Inferior-to-Superior direction from

z-coordinate z1 to z2 (mm) [negative z is Inferior, positive z is Superior] [OR, you may use something like -IS 10I 20S

to project from z=-10 mm to z=+20 mm ]
-ALL ==> Equivalent to ‘-RL all -AP all -IS all’
  • NOTE that a projection direction will not be used if the bounds aren’t

    given for that direction; thus, at least one of -RL, -AP, or -IS must be used, or nothing will be computed!

  • NOTE that in the directions transverse to the projection direction,

    all the data is used; that is, ‘-RL -5 5’ will produce a full sagittal image summed over a 10 mm slice, irrespective of the -IS or -AP extents.

  • NOTE that the [editing options] are the same as in 3dmerge.

    In particular, the ‘-1thtoin’ option can be used to project the threshold data (if available).

INPUT DATASET NAMES

This program accepts datasets that are modified on input according to the following schemes:

‘r1+orig[3..5]’ {sub-brick selector} ‘r1+orig<100..200>’ {sub-range selector} ‘r1+orig[3..5]<100..200>’ {both selectors} ‘3dcalc( -a r1+orig -b r2+orig -expr 0.5*(a+b) )’ {calculation}

For the gruesome details, see the output of ‘afni -help’.

++ Compile date = Dec 16 2015

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