Topology-Guided Path Integral Approach for Stochastic Optimal Control in Cluttered Environment

This paper addresses planning and control of robot motion under uncertainty that is formulated as a continuous-time, continuous-space stochastic optimal control problem, by developing a topology-guided path integral control method. The path integral control framework, which forms the backbone of the proposed method, re-writes the Hamilton-Jacobi-Bellman equation as a statistical inference problem; the resulting inference problem is solved by a sampling procedure that computes the distribution of controlled trajectories around the trajectory by the passive dynamics. For motion control of robots in a highly cluttered environment, however, this sampling can easily be trapped in a local minimum unless the sample size is very large, since the global optimality of local minima depends on the degree of uncertainty. Thus, a homology-embedded sampling-based planner that identifies many (potentially) local-minimum trajectories in different homology classes is developed to aid the sampling process. In combination with a receding-horizon fashion of the optimal control the proposed method produces a dynamically feasible and collision-free motion plans without being trapped in a local minimum. Numerical examples on a synthetic toy problem and on quadrotor control in a complex obstacle field demonstrate the validity of the proposed method.Comment: arXiv admin note: text overlap with arXiv:1510.0534

Discrete Elastic Inner Vector Spaces with Application in Time Series and Sequence Mining

This paper proposes a framework dedicated to the construction of what we call discrete elastic inner product allowing one to embed sets of non-uniformly sampled multivariate time series or sequences of varying lengths into inner product space structures. This framework is based on a recursive definition that covers the case of multiple embedded time elastic dimensions. We prove that such inner products exist in our general framework and show how a simple instance of this inner product class operates on some prospective applications, while generalizing the Euclidean inner product. Classification experimentations on time series and symbolic sequences datasets demonstrate the benefits that we can expect by embedding time series or sequences into elastic inner spaces rather than into classical Euclidean spaces. These experiments show good accuracy when compared to the euclidean distance or even dynamic programming algorithms while maintaining a linear algorithmic complexity at exploitation stage, although a quadratic indexing phase beforehand is required.Comment: arXiv admin note: substantial text overlap with arXiv:1101.431

The Parallelism Motifs of Genomic Data Analysis

Genomic data sets are growing dramatically as the cost of sequencing continues to decline and small sequencing devices become available. Enormous community databases store and share this data with the research community, but some of these genomic data analysis problems require large scale computational platforms to meet both the memory and computational requirements. These applications differ from scientific simulations that dominate the workload on high end parallel systems today and place different requirements on programming support, software libraries, and parallel architectural design. For example, they involve irregular communication patterns such as asynchronous updates to shared data structures. We consider several problems in high performance genomics analysis, including alignment, profiling, clustering, and assembly for both single genomes and metagenomes. We identify some of the common computational patterns or motifs that help inform parallelization strategies and compare our motifs to some of the established lists, arguing that at least two key patterns, sorting and hashing, are missing

Organismic Supercategories and Qualitative Dynamics of Systems

The representation of biological systems by means of organismic supercategories, developed in previous papers, is further discussed. The different approaches to relational biology, developed by Rashevsky, Rosen and by Baianu and Marinescu, are compared with Qualitative Dynamics of Systems which was initiated by Henri Poincaré (1881). On the basis of this comparison some concrete results concerning dynamics of genetic system, development, fertilization, regeneration, analogies, and oncogenesis are derived