Volumetric (3d) images are acquired for many scientific and biomedical purposes using imaging methods such as serial section microscopy, CT scans, and MRI. A frequent step in the analysis and reconstruction of such data is the alignment and registration of images that were acquired in succession along a spatial or temporal dimension. For example, in serial section electron microscopy, individual 2d sections are imaged via electron microscopy and then must be aligned to one another in order to produce a coherent 3d volume. State of the art approaches find image correspondences derived from patch matching and invariant feature detectors, and then solve optimization problems that rigidly or elastically deform series of images into an aligned volume. Here we show how fully convolutional neural networks trained with an adversarial loss function can be used for two tasks: (1) synthesis of missing or damaged image data from adjacent sections, and (2) fine-scale alignment of block-face electron microscopy data. Finally, we show how these two capabilities can be combined in order to produce artificial isotropic volumes from anisotropic image volumes using a super-resolution adversarial alignment and interpolation approach.
Registering, stitching, and aligning images that represent contiguous samples along some axis in space or time is a computer vision problem that has found applications across photography, microscopy, astronomy, and many other areas @cite_0 . Classical approaches make heavy use of image-derived correspondences computed by local correlation measurements or robust interest point detectors @cite_10 , which are used to estimate how overlapping or nearly overlapping images geometrically relate to one another. These estimates can then be used to, for example, define an optimization problem in which images are elastically deformed to maximize pixel-wise consistency @cite_1 . Such approaches have proven highly effective for producing coherent 3d volumes from thousands or millions of individual 2d images that may be subject to various types of deformation, artifacts, and missing data.
@cite_0 @cite_1 @cite_10
2026140461 2151103935
The aim of this paper is to achieve seamless image stitching without producing visual artifact caused by severe intensity discrepancy and structure misalignment, given that the input images are roughly aligned or globally registered. Our new approach is based on structure deformation and propagation for achieving the overall consistency in image structure and intensity. The new stitching algorithm, which has found applications in image compositing, image blending, and intensity correction, consists of the following main processes. Depending on the compatibility and distinctiveness of the 2D features detected in the image plane, single or double optimal partitions are computed subject to the constraints of intensity coherence and structure continuity. Afterwards, specific 1D features are detected along the computed optimal partitions from which a set of sparse deformation vectors is derived to encode 1D feature matching between the partitions. These sparse deformation cues are robustly propagated into the input images by solving the associated minimization problem in gradient domain, thus providing a uniform framework for the simultaneous alignment of image structure and intensity. We present results in general image compositing and blending in order to show the effectiveness of our method in producing seamless stitching results from complex input images. Three-dimensional shape reconstruction of 2D landmark points on a single image is a hallmark of human vision, but is a task that has been proven difficult for computer vision algorithms. We define a feed-forward deep neural network algorithm that can reconstruct 3D shapes from 2D landmark points almost perfectly (i.e., with extremely small reconstruction errors), even when these 2D landmarks are from a single image. Our experimental results show an improvement of up to two-fold over state-of-the-art computer vision algorithms; 3D shape reconstruction of human faces is given at a reconstruction error < .004, cars at .0022, human bodies at .022, and highly-deformable flags at an error of .0004. Our algorithm was also a top performer at the 2016 3D Face Alignment in the Wild Challenge competition (done in conjunction with the European Conference on Computer Vision, ECCV) that required the reconstruction of 3D face shape from a single image. The derived algorithm can be trained in a couple hours and testing runs at more than 1, 000 frames s on an i7 desktop. We also present an innovative data augmentation approach that allows us to train the system efficiently with small number of samples. And the system is robust to noise (e.g., imprecise landmark points) and missing data (e.g., occluded or undetected landmark points). We present a framework for robustly estimating registration between a 3D volume image and a 2D projection image and evaluate its precision and robustness in spine interventions for vertebral localization in the presence of anatomical deformation. The framework employs a normalized gradient information similarity metric and multi-start covariance matrix adaptation evolution strategy optimization with local-restarts, which provided improved robustness against deformation and content mismatch. The parallelized implementation allowed orders-of-magnitude acceleration in computation time and improved the robustness of registration via multi-start global optimization. Experiments involved a cadaver specimen and two CT datasets (supine and prone) and 36 C-arm fluoroscopy images acquired with the specimen in four positions (supine, prone, supine with lordosis, prone with kyphosis), three regions (thoracic, abdominal, and lumbar), and three levels of geometric magnification (1.7, 2.0, 2.4). Registration accuracy was evaluated in terms of projection distance error (PDE) between the estimated and true target points in the projection image, including 14 400 random trials (200 trials on the 72 registration scenarios) with initialization error up to ±200 mm and ±10°. The resulting median PDE was better than 0.1 mm in all cases, depending somewhat on the resolution of input CT and fluoroscopy images. The cadaver experiments illustrated the tradeoff between robustness and computation time, yielding a success rate of 99.993 in vertebral labeling (with 'success' defined as PDE <5 mm) using 1,718 664 ± 96 582 function evaluations computed in 54.0 ± 3.5 s on a mid-range GPU (nVidia, GeForce GTX690). Parameters yielding a faster search (e.g., fewer multi-starts) reduced robustness under conditions of large deformation and poor initialization (99.535 success for the same data registered in 13.1 s), but given good initialization (e.g., ±5 mm, assuming a robust initial run) the same registration could be solved with 99.993 success in 6.3 s. The ability to register CT to fluoroscopy in a manner robust to patient deformation could be valuable in applications such as radiation therapy, interventional radiology, and an assistant to target localization (e.g., vertebral labeling) in image-guided spine surgery. We propose models of 3D shape which may be viewed as deformable bodies composed of simulated elastic material. In contrast to traditional, purely geometric models of shape, deformable models are active—their shapes change in response to externally applied forces. We develop a deformable model for 3D shape which has a preference for axial symmetry. Symmetry is represented even though the model does not belong to a parametric shape family such as (generalized) cylinders. Rather, a symmetry-seeking property is designed into internal forces that constrain the deformations of the model. We develop a framework for 3D object reconstruction based on symmetry-seeking models. Instances of these models are formed from monocular image data through the action of external forces derived from the data. The forces proposed in this paper deform the model in space so that the shape of its projection into the image plane is consistent with the 2D silhouette of an object of interest. The effectiveness of our approach is demonstrated using natural images.