737878
Bi-scale radiance transfer
Radiance transfer represents how generic source lighting is shadowed and scattered by an object to produce view-dependent appearance. We generalize by rendering transfer at two scales. A macro-scale is coarsely sampled over an object's surface, providing global effects like shadows cast from an arm onto a body. A meso-scale is finely sampled over a small patch to provide local texture. Low-order (25D) spherical harmonics represent low-frequency lighting dependence for both scales. To render, a coefficient vector representing distant source lighting is first transformed at the macro-scale by a matrix at each vertex of a coarse mesh. The resulting vectors represent a spatially-varying hemisphere of lighting incident to the meso-scale. A 4D function, called a radiance transfer texture (RTT), then specifies the surface's meso-scale response to each lighting basis component, as a function of a spatial index and a view direction. Finally, a 25D dot product of the macro-scale result vector with the vector looked up from the RTT performs the correct shading integral. We use an id map to place RTT samples from a small patch over the entire object; only two scalars are specified at high spatial resolution. Results show that bi-scale decomposition makes preprocessing practical and efficiently renders self-shadowing and interreflection effects from dynamic, low-frequency light sources at both scales.
11755901
Interactive mesh deformation with pseudo material effects
This paper presents a novel interactive mesh deformation method that can achieve various dynamic material effects, including elastic membrane and cloth effects. In our framework, a mesh is encoded by some differential quantities based on edge length and dihedral angle; and the deformation is formulated as a least square problem for preserving the edge length and dihedral angle via the differential quantities. In order to obtain anisotropic material effects, we further propose an edge-weighting scheme based on a user-specified vector field. To avoid specifying the local transformations, we set up an iterative scheme for solving the deformation. At last, several examples are presented to show that our approach can interactively generate visually pleasing deformations. Copyright © 2006 John Wiley & Sons, Ltd.
6185811
An efficient large deformation method using domain decomposition
Efficiently simulating large deformations of flexible objects is a challenging problem in computer graphics. In this paper, we present a physically based approach to this problem, using the linear elasticity model and a finite elements method. To handle large deformations in the linear elasticity model, we exploit the domain decomposition method, based on the observation that each sub-domain undergoes a relatively small local deformation, involving a global rigid transformation. In order to efficiently solve the deformation at each simulation time step, we pre-compute the object responses in terms of displacement accelerations to the forces acting on each node, yielding a force-displacement matrix. However, the force-displacement matrix could be too large to handle for densely tessellated objects. To address this problem, we present two methods. The first method exploits spatial coherence to compress the force-displacement matrix using the clustered principal component analysis method; and the second method pre-computes only the force-displacement vectors for the boundary vertices of the sub-domains and resorts to the Cholesky factorization to solve the acceleration for the internal vertices of the sub-domains. Finally, we present some experimental results to show the large deformation effects and fast performance on complex large scale objects under interactive user manipulations.
8994921
Large mesh deformation using the volumetric graph Laplacian
We present a novel technique for large deformations on 3D meshes using the volumetric graph Laplacian. We first construct a graph representing the volume inside the input mesh. The graph need not form a solid meshing of the input mesh's interior; its edges simply connect nearby points in the volume. This graph's Laplacian encodes volumetric details as the difference between each point in the graph and the average of its neighbors. Preserving these volumetric details during deformation imposes a volumetric constraint that prevents unnatural changes in volume. We also include in the graph points a short distance outside the mesh to avoid local self-intersections. Volumetric detail preservation is represented by a quadric energy function. Minimizing it preserves details in a least-squares sense, distributing error uniformly over the whole deformed mesh. It can also be combined with conventional constraints involving surface positions, details or smoothness, and efficiently minimized by solving a sparse linear system.We apply this technique in a 2D curve-based deformation system allowing novice users to create pleasing deformations with little effort. A novel application of this system is to apply nonrigid and exaggerated deformations of 2D cartoon characters to 3D meshes. We demonstrate our system's potential with several examples.
44899292
Subspace gradient domain mesh deformation
In this paper we present a general framework for performing constrained mesh deformation tasks with gradient domain techniques. We present a gradient domain technique that works well with a wide variety of linear and nonlinear constraints. The constraints we introduce include the nonlinear volume constraint for volume preservation, the nonlinear skeleton constraint for maintaining the rigidity of limb segments of articulated figures, and the projection constraint for easy manipulation of the mesh without having to frequently switch between multiple viewpoints. To handle nonlinear constraints, we cast mesh deformation as a nonlinear energy minimization problem and solve the problem using an iterative algorithm. The main challenges in solving this nonlinear problem are the slow convergence and numerical instability of the iterative solver. To address these issues, we develop a subspace technique that builds a coarse control mesh around the original mesh and projects the deformation energy and constraints onto the control mesh vertices using the mean value interpolation. The energy minimization is then carried out in the subspace formed by the control mesh vertices. Running in this subspace, our energy minimization solver is both fast and stable and it provides interactive responses. We demonstrate our deformation constraints and subspace deformation technique with a variety of constrained deformation examples.
4392406
Synthesis and rendering of bidirectional texture functions on arbitrary surfaces
The bidirectional texture function (BTF) is a 6D function that describes the appearance of a real-world surface as a function of lighting and viewing directions. The BTF can model the fine-scale shadows, occlusions, and specularities caused by surface mesostructures. We present algorithms for efficient synthesis of BTFs on arbitrary surfaces and for hardware-accelerated rendering. For both synthesis and rendering, a main challenge is handling the large amount of data in a BTF sample. To addresses this challenge, we approximate the BTF sample by a small number of 4D point appearance functions (PAFs) multiplied by 2D geometry maps. The geometry maps and PAFs lead to efficient synthesis and fast rendering of BTFs on arbitrary surfaces. For synthesis, a surface BTF can be generated by applying a texton-based synthesis algorithm to a small set of 2D geometry maps while leaving the companion 4D PAFs untouched. As for rendering, a surface BTF synthesized using geometry maps is well-suited for leveraging the programmable vertex and pixel shaders on the graphics hardware. We present a real-time BTF rendering algorithm that runs at the speed of about 30 frames/second on a mid-level PC with an ATI Radeon 8500 graphics card. We demonstrate the effectiveness of our synthesis and rendering algorithms using both real and synthetic BTF samples.
2180147
An experimental evaluation of a loop versus a reference design for two-channel microarrays
MOTIVATION
Despite theoretical arguments that so-called 'loop designs' for two-channel DNA microarray experiments are more efficient, biologists continue to use 'reference designs'. We describe two sets of microarray experiments with RNA from two different biological systems (TPA-stimulated mammalian cells and Streptomyces coelicolor). In each case, both a loop and a reference design were used with the same RNA preparations with the aim of studying their relative efficiency.


RESULTS
The results of these experiments show that (1) the loop design attains a much higher precision than the reference design, (2) multiplicative spot effects are a large source of variability, and if they are not accounted for in the mathematical model, for example, by taking log-ratios or including spot effects, then the model will perform poorly. The first result is reinforced by a simulation study. Practical recommendations are given on how simple loop designs can be extended to more realistic experimental designs and how standard statistical methods allow the experimentalist to use and interpret the results from loop designs in practice.


AVAILABILITY
The data and R code are available at http://exgen.ma.umist.ac.uk


CONTACT
veronica.vinciotti@brunel.ac.uk.
1063503
Mutual anonymous overlay multicast
Multicast services are demanded by a variety of applications. Many applications require anonymity during their communication. However, there has been very little work on anonymous multicasting and such services are not available yet. Due to the fundamental differences between multicast and unicast, the solutions proposed for anonymity in unicast communications cannot be directly applied to multicast applications. In this paper we define the anonymous multicast system, and propose a mutual anonymous multicast (MAM) protocol including the design of a unicast mutual anonymity protocol and construction and optimization of an anonymous multicast tree. MAM is self-organizing and completely distributed. We define the attack model in an anonymous multicast system and analyze the anonymity degree. We also evaluate the performance of MAM by comprehensive simulations.
10851913
Taming heterogeneity - the Ptolemy approach
Modern embedded computing systems tend to be heterogeneous in the sense of being composed of subsystems with very different characteristics, which communicate and interact in a variety of ways-synchronous or asynchronous, buffered or unbuffered, etc. Obviously, when designing such systems, a modeling language needs to reflect this heterogeneity. Today's modeling environments usually offer a variant of what we call amorphous heterogeneity to address this problem. This paper argues that modeling systems in this manner leads to unexpected and hard-to-analyze interactions between the communication mechanisms and proposes a more structured approach to heterogeneity, called hierarchical heterogeneity, to solve this problem. It proposes a model structure and semantic framework that support this form of heterogeneity, and discusses the issues arising from heterogeneous component interaction and the desire for component reuse. It introduces the notion of domain polymorphism as a way to address these issues.
2422545
Probe-level measurement error improves accuracy in detecting differential gene expression
MOTIVATION
Finding differentially expressed genes is a fundamental objective of a microarray experiment. Numerous methods have been proposed to perform this task. Existing methods are based on point estimates of gene expression level obtained from each microarray experiment. This approach discards potentially useful information about measurement error that can be obtained from an appropriate probe-level analysis. Probabilistic probe-level models can be used to measure gene expression and also provide a level of uncertainty in this measurement. This probe-level measurement error provides useful information which can help in the identification of differentially expressed genes.


RESULTS
We propose a Bayesian method to include probe-level measurement error into the detection of differentially expressed genes from replicated experiments. A variational approximation is used for efficient parameter estimation. We compare this approximation with MAP and MCMC parameter estimation in terms of computational efficiency and accuracy. The method is used to calculate the probability of positive log-ratio (PPLR) of expression levels between conditions. Using the measurements from a recently developed Affymetrix probe-level model, multi-mgMOS, we test PPLR on a spike-in dataset and a mouse time-course dataset. Results show that the inclusion of probe-level measurement error improves accuracy in detecting differential gene expression.


AVAILABILITY
The MAP approximation and variational inference described in this paper have been implemented in an R package pplr. The MCMC method is implemented in Matlab. Both software are available from http://umber.sbs.man.ac.uk/resources/puma.
45375926
A Markov chain sequence generator for power macromodeling
In this paper, we present a novel sequence generator based on a Markov chain (MC) model. Specifically, we formulate the problem of generating a sequence of vectors with given average input probability p, average transition density d, and spatial correlation s as a transition matrix computation problem, in which the matrix elements are subject to constraints derived from the specified statistics. We also give a practical heuristic that computes such a matrix and generates a sequence of l n-bit vectors in O(nl+n/sup 2/) time. Derived from a strongly mixing MC, our generator yields binary vector sequences with accurate statistics, high uniformity, and high randomness. Experimental results show that our sequence generator can cover more than 99% of the parameter space. Sequences of 2000 48-bit vectors are generated in less than 0.05 s, with average deviations of the signal statistics p,d, and s equal to 1.6%, 1.8%, and 2.8%, respectively. Our generator enables the detailed study of power macromodeling. Using our tool and the ISCAS'85 benchmark circuits, we have assessed the sensitivity of power dissipation to the three input statistics p,d, and s. Our investigation reveals that power is most sensitive to transition density, while only occasionally exhibiting high sensitivity to signal probability and spatial correlation. Our experiments also show that input signal imbalance can cause estimation errors as high as 100% in extreme cases, although errors are usually within 25%.