Graph matching with a dual-step EM algorithm

This paper describes a new approach to matching geometric structure in 2D point-sets. The novel feature is to unify the tasks of estimating transformation geometry and identifying point-correspondence matches. Unification is realized by constructing a mixture model over the bipartite graph representing the correspondence match and by affecting optimization using the EM algorithm. According to our EM framework, the probabilities of structural correspondence gate contributions to the expected likelihood function used to estimate maximum likelihood transformation parameters. These gating probabilities measure the consistency of the matched neighborhoods in the graphs. The recovery of transformational geometry and hard correspondence matches are interleaved and are realized by applying coupled update operations to the expected log-likelihood function. In this way, the two processes bootstrap one another. This provides a means of rejecting structural outliers. We evaluate the technique on two real-world problems. The first involves the matching of different perspective views of 3.5-inch floppy discs. The second example is furnished by the matching of a digital map against aerial images that are subject to severe barrel distortion due to a line-scan sampling process. We complement these experiments with a sensitivity study based on synthetic data

A coherent point drift algorithm for breast image registration via surface markers

Breast Magnetic Resonance Imaging (MRI) is a reliable imaging tool for localization and evaluation of lesions prior to breast conserving surgery (BCS). MR images typically will be used to determine the size and location of the tumours before making the incision in order to minimize the amount of tissue excised. The arm position and configuration of the breast during and prior to surgery are different and one question is whether it would be possible to match the two configurations. This matching process can potentially be used in development of tools to guide surgeons in the incision process. Recently, a Thin- Plate-Spline (TPS) algorithm has been proposed to assess the feasibility of breast tissue matching using fiducial surface markers in two different arm positions. The registration algorithm uses the surface markers only and does not employ the image intensities. In this Thesis, I apply and evaluate a coherent point drift (CPD) algorithm for registration of 3D breast MR images of six patient volunteers. In particular, we evaluate the results of the previous TPS registration technique to the proposed rigid, affine, and deformable CPD registration algorithms on the same patient datasets. The results suggest that the CPD deformable registration algorithm is superior in correcting the motion of the breast compared to CPD rigid, affine and TPS registration algorithms. The CPD registration results reported in this thesis took 0.2 to 0.4 seconds, which is significantly lower than the computation time using TPS (under a minute)

Geometry Processing of Conventionally Produced Mouse Brain Slice Images

Brain mapping research in most neuroanatomical laboratories relies on conventional processing techniques, which often introduce histological artifacts such as tissue tears and tissue loss. In this paper we present techniques and algorithms for automatic registration and 3D reconstruction of conventionally produced mouse brain slices in a standardized atlas space. This is achieved first by constructing a virtual 3D mouse brain model from annotated slices of Allen Reference Atlas (ARA). Virtual re-slicing of the reconstructed model generates ARA-based slice images corresponding to the microscopic images of histological brain sections. These image pairs are aligned using a geometric approach through contour images. Histological artifacts in the microscopic images are detected and removed using Constrained Delaunay Triangulation before performing global alignment. Finally, non-linear registration is performed by solving Laplace's equation with Dirichlet boundary conditions. Our methods provide significant improvements over previously reported registration techniques for the tested slices in 3D space, especially on slices with significant histological artifacts. Further, as an application we count the number of neurons in various anatomical regions using a dataset of 51 microscopic slices from a single mouse brain. This work represents a significant contribution to this subfield of neuroscience as it provides tools to neuroanatomist for analyzing and processing histological data.Comment: 14 pages, 11 figure

AgriColMap: Aerial-Ground Collaborative 3D Mapping for Precision Farming

The combination of aerial survey capabilities of Unmanned Aerial Vehicles with targeted intervention abilities of agricultural Unmanned Ground Vehicles can significantly improve the effectiveness of robotic systems applied to precision agriculture. In this context, building and updating a common map of the field is an essential but challenging task. The maps built using robots of different types show differences in size, resolution and scale, the associated geolocation data may be inaccurate and biased, while the repetitiveness of both visual appearance and geometric structures found within agricultural contexts render classical map merging techniques ineffective. In this paper we propose AgriColMap, a novel map registration pipeline that leverages a grid-based multimodal environment representation which includes a vegetation index map and a Digital Surface Model. We cast the data association problem between maps built from UAVs and UGVs as a multimodal, large displacement dense optical flow estimation. The dominant, coherent flows, selected using a voting scheme, are used as point-to-point correspondences to infer a preliminary non-rigid alignment between the maps. A final refinement is then performed, by exploiting only meaningful parts of the registered maps. We evaluate our system using real world data for 3 fields with different crop species. The results show that our method outperforms several state of the art map registration and matching techniques by a large margin, and has a higher tolerance to large initial misalignments. We release an implementation of the proposed approach along with the acquired datasets with this paper.Comment: Published in IEEE Robotics and Automation Letters, 201