Image-based Bone Marrow dosimetry

[plesqui]

This PR brings support to calculate bone-marrow dose directly from quantitative SPECT images. This method leverages the bone-marrow distribution (i.e., the mask) obtained from an adult, male, XCAT phantom. This mask is registered to the patient's anatomy at each time point by mapping first the XCAT phantom skeleton to the patient's skeleton, and subsequently applying this transformation into the XCAT phantom bone-marrow mask.

In order to obtain the bone-marrow mask and add it to the longitudinal CT and SPECT study, please add the following code snippet after instantiating both studies:

# Generate Bone Marrow Mask on CT
longCTAC.add_bone_marrow_mask_from_phantom(phantom_skeleton_path="../data/phantom/skeleton/Skeleton.nii.gz",
                                           phantom_bone_marrow_path="../data/phantom/bone_marrow/Marrow.nii.gz")



# Copy Bone-Marrow masks from CT to NM:
from copy import deepcopy
for time_id, _ in enumerate(time_points):
    longSPECT.add_masks_to_time_point(time_id=time_id, masks={"BoneMarrow": deepcopy(longCTAC.masks[time_id]["BoneMarrow"])})

[carluri]

I have reviewed the suggested edits and agree that they are suitable for the image-based bone marrow dosimetry task