pytomography.utils.cardiac_spect#

Module Contents#

Functions#

shift_object(object, tx, ty, tz)

Shift the 3D volume based on the given translation parameters.

rotate_object(object, transaxial_angle, ...)

Rotates the volume around the transaxial and transsagittal slices.

get_mask(object, lowerThreshold, upperThreshold)

Segment the object based on the given thresholds.

get_shift_values(slice)

Calculate the shift values for the given object based on the center of mass.

get_angle(slice, angle_range_degrees)

Get the angle of the best line passing through the center of the image.

plot_arrow(image, angle_degrees[, fontsize])

Draws an arrow from the center of the image based on the given angle and displays a polar plot around it.

create_circular_mask(height, width, radius)

Create a circular mask.

masking(object, radius)

Apply a circular mask to the object in all three views.
pytomography.utils.cardiac_spect.shift_object(object, tx, ty, tz)[source]#

Shift the 3D volume based on the given translation parameters.

Parameters:

  • object (torch.Tensor) – Input 3D volume to be shifted (torch.Tensor[Lx, Ly, Lz]).

  • tx (float) – Translation in x direction (voxels).

  • ty (float) – Translation in y direction (voxels).

  • tz (float) – Translation in z direction (voxels).

Returns:

The shifted object (torch.Tensor[Lx, Ly, Lz]).

Return type:

Shifted 3D volume

pytomography.utils.cardiac_spect.rotate_object(object, transaxial_angle, transsagittal_angle)[source]#

Rotates the volume around the transaxial and transsagittal slices.

Parameters:

  • object (torch.Tensor) – The 3D volume to be rotated (torch.Tensor[Lx, Ly, Lz]).

  • angle_transaxial (float) – The angle to rotate around the transaxial slice (z-axis).

  • angle_transsagittal (float) – The angle to rotate around the transsagittal slice (y-axis).

  • transaxial_angle (float) –

  • transsagittal_angle (float) –

Returns:

The reoriented object (torch.Tensor[Lx, Ly, Lz]).

Return type:

torch.Tensor

pytomography.utils.cardiac_spect.get_mask(object, lowerThreshold, upperThreshold)[source]#

Segment the object based on the given thresholds.

Parameters:

  • object (torch.Tensor) – torch.Tensor[Lx, Ly, Lz]

  • lowerThreshold (float) – Lower threshold for the binary mask

  • upperThreshold (float) – Upper threshold for the binary mask

Return type:

torch.Tensor

pytomography.utils.cardiac_spect.get_shift_values(slice)[source]#

Calculate the shift values for the given object based on the center of mass.

Parameters:

slice (torch.Tensor) – torch.Tensor[Lx, Ly] representing the slice.

Returns:

The shifted image. shift_values (torch.Tensor): The shift values in x and y directions.

Return type:

shifted_image (torch.Tensor)

pytomography.utils.cardiac_spect.get_angle(slice, angle_range_degrees)[source]#

Get the angle of the best line passing through the center of the image.

Parameters:

  • slice (torch.Tensor) – torch.Tensor[Lx, Ly] representing the slice.

  • angle_range_degrees (torch.Tensor) – torch.Tensor[N] with angles in degrees.

Returns:

The best angle in degrees.

Return type:

best_angle_degree

pytomography.utils.cardiac_spect.plot_arrow(image, angle_degrees, fontsize=10)[source]#

Draws an arrow from the center of the image based on the given angle and displays a polar plot around it. The angle is also displayed inside the plot.

Parameters: image (np.ndarray): 2D numpy array representing the image. angle_degrees (float): Angle of the arrow with respect to the vertical, measured clockwise.

pytomography.utils.cardiac_spect.create_circular_mask(height, width, radius)[source]#

Create a circular mask.

pytomography.utils.cardiac_spect.masking(object, radius)[source]#

Apply a circular mask to the object in all three views.

Parameters:

  • object (torch.Tensor) –

  • radius (int) –

Return type:

torch.Tensor