neuro_dot.Spatial_Transforms#
Module Contents#
Functions#
|
AFFINE3D_IMG Transforms a 3D data set to a new space. |
|
CHANGE_SPACE_COORDS Applies a look-up to change 3D coordinates into a new space. |
|
GOOD_VOX2VOL Transforms a VOX x TIME array into a volume, X x Y x Z x TIME, given a space described by "dim". |
|
ROTATE_CAP Rotates the cap in space. |
|
ROTATION_MATRIX Creates a rotation matrix. |
- neuro_dot.Spatial_Transforms.affine3d_img(imgA, infoA, infoB, affine=np.eye(4), interp_type='nearest')#
AFFINE3D_IMG Transforms a 3D data set to a new space.
imgB = AFFINE3D_IMG(imgA, infoA, infoB, affine) takes a reconstructed, VOX x TIME image “imgA” and transforms it from its initial voxel space defined by the structure “infoA” into a target voxel space defined by the structure “infoB” and using the transform matrix “affine”. The output is a VOX x TIME matrix “imgB” in the target voxel space.
imgB = AFFINE3D_IMG(imgA, infoA, infoB, affine, interp_type) allows the user to specify an interpolation method for the INTERP3 function that AFFINE3D_IMG uses. Other methods that can be used (input as strings) are ‘nearest’, ‘spline’, and ‘cubic’. The default value is ‘linear’.
See Also: SPECTROSCOPY_IMG, CHANGE_SPACE_COORDS, INTERP3.
- neuro_dot.Spatial_Transforms.change_space_coords(coord_in, space_info, output_type='coord')#
CHANGE_SPACE_COORDS Applies a look-up to change 3D coordinates into a new space.
coord_out = CHANGE_SPACE_COORDS(coord_in, space_info, output_type) takes a set of coordinates “coord_in” of the initial space “output_type”, and converts them into the new space defined by the structure “space_info”, which is then output as “coord_out”.
See Also: AFFINE3D_IMG.
- neuro_dot.Spatial_Transforms.GoodVox2vol(img, dim)#
GOOD_VOX2VOL Transforms a VOX x TIME array into a volume, X x Y x Z x TIME, given a space described by “dim”.
imgvol = GOOD_VOX2VOL(img, dim) reshapes a VOX x TIME array “img” into an X x Y x Z x TIME array “imgvol”, according to the dimensions of the space described by “dim”.
See Also: SPECTROSCOPY_IMG.
- neuro_dot.Spatial_Transforms.rotate_cap(tpos_in, dTheta)#
ROTATE_CAP Rotates the cap in space.
tpos_out = ROTATE_CAP(tpos_in, dTheta) rotates the cap grid given by “tpos_in” by the rotation vector “dTheta” (in degrees) and outputs it as “tpos_out”.
Dependencies: ROTATION_MATRIX.
See Also: PLOTLRMESHES, SCALE_CAP.
- neuro_dot.Spatial_Transforms.rotation_matrix(direction, theta)#
ROTATION_MATRIX Creates a rotation matrix.
rot = ROTATION_MATRIX(direction, theta) generates a rotation matrix “rot” for the vector “direction” given an angle “theta” (in radians).
See Also: ROTATE_CAP.