We propose a deep learning method for 3D volumetric reconstruction in low-dose helical cone-beam computed tomography. Prior machine learning approaches require reference reconstructions computed by another algorithm for training. In contrast, we train our model in a fully self-supervised manner using only noisy 2D X-ray data. This is enabled by incorporating a fast differentiable CT simulator in the training loop. As we do not rely on reference reconstructions, the fidelity of our results is not limited by their potential shortcomings. We evaluate our method on real helical cone-beam projections and simulated phantoms. Our results show significantly higher visual fidelity and better PSNR over techniques that rely on existing reconstructions. When applied to full-dose data, our method produces high-quality results orders of magnitude faster than iterative techniques.
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A key step during industrial design is the passing of design information from computer aided design (CAD) to analysis tools (CAE) and vice versa. Here, one is faced with a severe incompatibility in geometry representation: While CAD is usually based on surface representations, analysis mostly relies on volumetric representations. The forward pass, i.e., converting CAD data to computational meshes, is well understood and established. However, the same does not hold for the inverse direction, i.e., CAD reconstruction of deformed geometries resulting, e.g., from shape optimization. The few reconstruction methods reported mainly rely on spline fitting, in particular methods that rely on creating new splines simililar to shape reconstruction from 3D imaging. In contrast, this paper studies a novel approach that reuses the CAD data given in the initial design. We show that this concept leads to precise shape reconstructions while also preserving the initial notion of features defined during design. Furthermore, reusing the initial CAD representation reduces the shape reconstruction problem to a shape modification problem. We study this unique feature and show that it enables the reconstruction of CAD data from computational meshes by composing each spline in the initial CAD data with a single, global deformation spline. While post-processing is needed for use in current CAD software, this novel approach not only allows creating watertight models, but also enables reconstructing complete CAD models even from defeatured computational meshes.
Image smoothing is by reducing pixel-wise gradients to smooth out details. As existing methods always rely on gradients to determine smoothing manners, it is difficult to distinguish structures and details to handle distinctively due to the overlapped ranges of gradients for structures and details. Thus, it is still challenging to achieve high-quality results, especially on preserving weak structures and removing high-contrast details. In this paper, we address this challenge by improving the real-time optimization-based method via iterative least squares (called ILS). We observe that 1) ILS uses gradients as the independent variable in its penalty function for determining smoothing manners, and 2) the framework of ILS can still work for image smoothing when we use some values instead of gradients in the penalty function. Thus, corresponding to the properties of pixels on structures or not, we compute some values to use in the penalty function to determine smoothing manners, and so we can handle structures and details distinctively, no matter whether their gradients are high or low. As a result, we can conveniently remove high-contrast details while preserving weak structures. Moreover, such values can be adjusted to accelerate optimization computation, so that we can use fewer iterations than the original ILS method for efficiency. This also reduces the changes onto structures to help structure preservation. Experimental results show our advantages over existing methods on efficiency and quality.
This paper is to investigate the high-quality analytical reconstructions of multiple source-translation computed tomography (mSTCT) under an extended field of view (FOV). Under the larger FOVs, the previously proposed backprojection filtration (BPF) algorithms for mSTCT, including D-BPF and S-BPF (their differences are different derivate directions along the detector and source, respectively), make some errors and artifacts in the reconstructed images due to a backprojection weighting factor and the half-scan mode, which deviates from the intention of mSTCT imaging. In this paper, to achieve reconstruction with as little error as possible under the extremely extended FOV, we combine the full-scan mSTCT (F-mSTCT) geometry with the previous BPF algorithms to study the performance and derive a suitable redundancy-weighted function for F-mSTCT. The experimental results indicate FS-BPF can get high-quality, stable images under the extremely extended FOV of imaging a large object, though it requires more projections than FD-BPF. Finally, for different practical requirements in extending FOV imaging, we give suggestions on algorithm selection.
The recent neural surface reconstruction by volume rendering approaches have made much progress by achieving impressive surface reconstruction quality, but are still limited to dense and highly accurate posed views. To overcome such drawbacks, this paper pays special attention on the consistent surface reconstruction from sparse views with noisy camera poses. Unlike previous approaches, the key difference of this paper is to exploit the multi-view constraints directly from the explicit geometry of the neural surface, which can be used as effective regularization to jointly learn the neural surface and refine the camera poses. To build effective multi-view constraints, we introduce a fast differentiable on-surface intersection to generate on-surface points, and propose view-consistent losses based on such differentiable points to regularize the neural surface learning. Based on this point, we propose a jointly learning strategy for neural surface and camera poses, named SC-NeuS, to perform geometry-consistent surface reconstruction in an end-to-end manner. With extensive evaluation on public datasets, our SC-NeuS can achieve consistently better surface reconstruction results with fine-grained details than previous state-of-the-art neural surface reconstruction approaches, especially from sparse and noisy camera views.
Meta-learning extracts the common knowledge acquired from learning different tasks and uses it for unseen tasks. It demonstrates a clear advantage on tasks that have insufficient training data, e.g., few-shot learning. In most meta-learning methods, tasks are implicitly related via the shared model or optimizer. In this paper, we show that a meta-learner that explicitly relates tasks on a graph describing the relations of their output dimensions (e.g., classes) can significantly improve the performance of few-shot learning. This type of graph is usually free or cheap to obtain but has rarely been explored in previous works. We study the prototype based few-shot classification, in which a prototype is generated for each class, such that the nearest neighbor search between the prototypes produces an accurate classification. We introduce "Gated Propagation Network (GPN)", which learns to propagate messages between prototypes of different classes on the graph, so that learning the prototype of each class benefits from the data of other related classes. In GPN, an attention mechanism is used for the aggregation of messages from neighboring classes, and a gate is deployed to choose between the aggregated messages and the message from the class itself. GPN is trained on a sequence of tasks from many-shot to few-shot generated by subgraph sampling. During training, it is able to reuse and update previously achieved prototypes from the memory in a life-long learning cycle. In experiments, we change the training-test discrepancy and test task generation settings for thorough evaluations. GPN outperforms recent meta-learning methods on two benchmark datasets in all studied cases.
Graph convolutional networks (GCNs) have been successfully applied in node classification tasks of network mining. However, most of these models based on neighborhood aggregation are usually shallow and lack the "graph pooling" mechanism, which prevents the model from obtaining adequate global information. In order to increase the receptive field, we propose a novel deep Hierarchical Graph Convolutional Network (H-GCN) for semi-supervised node classification. H-GCN first repeatedly aggregates structurally similar nodes to hyper-nodes and then refines the coarsened graph to the original to restore the representation for each node. Instead of merely aggregating one- or two-hop neighborhood information, the proposed coarsening procedure enlarges the receptive field for each node, hence more global information can be learned. Comprehensive experiments conducted on public datasets demonstrate the effectiveness of the proposed method over the state-of-art methods. Notably, our model gains substantial improvements when only a few labeled samples are provided.
This work addresses a novel and challenging problem of estimating the full 3D hand shape and pose from a single RGB image. Most current methods in 3D hand analysis from monocular RGB images only focus on estimating the 3D locations of hand keypoints, which cannot fully express the 3D shape of hand. In contrast, we propose a Graph Convolutional Neural Network (Graph CNN) based method to reconstruct a full 3D mesh of hand surface that contains richer information of both 3D hand shape and pose. To train networks with full supervision, we create a large-scale synthetic dataset containing both ground truth 3D meshes and 3D poses. When fine-tuning the networks on real-world datasets without 3D ground truth, we propose a weakly-supervised approach by leveraging the depth map as a weak supervision in training. Through extensive evaluations on our proposed new datasets and two public datasets, we show that our proposed method can produce accurate and reasonable 3D hand mesh, and can achieve superior 3D hand pose estimation accuracy when compared with state-of-the-art methods.
With the advent of deep neural networks, learning-based approaches for 3D reconstruction have gained popularity. However, unlike for images, in 3D there is no canonical representation which is both computationally and memory efficient yet allows for representing high-resolution geometry of arbitrary topology. Many of the state-of-the-art learning-based 3D reconstruction approaches can hence only represent very coarse 3D geometry or are limited to a restricted domain. In this paper, we propose occupancy networks, a new representation for learning-based 3D reconstruction methods. Occupancy networks implicitly represent the 3D surface as the continuous decision boundary of a deep neural network classifier. In contrast to existing approaches, our representation encodes a description of the 3D output at infinite resolution without excessive memory footprint. We validate that our representation can efficiently encode 3D structure and can be inferred from various kinds of input. Our experiments demonstrate competitive results, both qualitatively and quantitatively, for the challenging tasks of 3D reconstruction from single images, noisy point clouds and coarse discrete voxel grids. We believe that occupancy networks will become a useful tool in a wide variety of learning-based 3D tasks.
Medical image segmentation requires consensus ground truth segmentations to be derived from multiple expert annotations. A novel approach is proposed that obtains consensus segmentations from experts using graph cuts (GC) and semi supervised learning (SSL). Popular approaches use iterative Expectation Maximization (EM) to estimate the final annotation and quantify annotator's performance. Such techniques pose the risk of getting trapped in local minima. We propose a self consistency (SC) score to quantify annotator consistency using low level image features. SSL is used to predict missing annotations by considering global features and local image consistency. The SC score also serves as the penalty cost in a second order Markov random field (MRF) cost function optimized using graph cuts to derive the final consensus label. Graph cut obtains a global maximum without an iterative procedure. Experimental results on synthetic images, real data of Crohn's disease patients and retinal images show our final segmentation to be accurate and more consistent than competing methods.
Recent advances in 3D fully convolutional networks (FCN) have made it feasible to produce dense voxel-wise predictions of volumetric images. In this work, we show that a multi-class 3D FCN trained on manually labeled CT scans of several anatomical structures (ranging from the large organs to thin vessels) can achieve competitive segmentation results, while avoiding the need for handcrafting features or training class-specific models. To this end, we propose a two-stage, coarse-to-fine approach that will first use a 3D FCN to roughly define a candidate region, which will then be used as input to a second 3D FCN. This reduces the number of voxels the second FCN has to classify to ~10% and allows it to focus on more detailed segmentation of the organs and vessels. We utilize training and validation sets consisting of 331 clinical CT images and test our models on a completely unseen data collection acquired at a different hospital that includes 150 CT scans, targeting three anatomical organs (liver, spleen, and pancreas). In challenging organs such as the pancreas, our cascaded approach improves the mean Dice score from 68.5 to 82.2%, achieving the highest reported average score on this dataset. We compare with a 2D FCN method on a separate dataset of 240 CT scans with 18 classes and achieve a significantly higher performance in small organs and vessels. Furthermore, we explore fine-tuning our models to different datasets. Our experiments illustrate the promise and robustness of current 3D FCN based semantic segmentation of medical images, achieving state-of-the-art results. Our code and trained models are available for download: //github.com/holgerroth/3Dunet_abdomen_cascade.
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