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We estimate dense, flicker-free, geometrically consistent depth
...The system builds upon traditional structure-from-motion (SfM) techniques to provide geometric constraints while integrating a convolutional neural network trained for single-image depth estimation. During inference, the model fine-tunes itself to align with the geometric constraints of a specific input video, ensuring stable and realistic depth maps even in less-constrained regions. This approach achieves improved geometric consistency and visual stability compared to prior monocular reconstruction methods. ...
...DRAMMS runs in command line in UNIX/Mac OS, It accepts Nifti/ANALYZE/MetaImage image formats. It is fully-automatic --- takes two input images, and generates a registered image and (optionally) the deformation field.
More information (installation, tutorial, manual, demonstration, FAQ, etc) can be found at http://www.rad.upenn.edu/sbia/software/dramms/ .