MOTIVATION: Structural variants (SVs) play a causal role in numerous diseases but can be difficult to detect and accurately genotype (determine zygosity) with short-read genome sequencing data (SRS). Improving SV genotyping accuracy in SRS data, particularly for the many SVs first detected with long-read sequencing, will improve our understanding of genetic variation. RESULTS: NPSV-deep is a deep learning-based approach for genotyping previously reported insertion and deletion SVs that recasts this task as an image similarity problem. NPSV-deep predicts the SV genotype based on the similarity between pileup images generated from the actual SRS data and matching SRS simulations. We show that NPSV-deep consistently matches or improves upon the state-of-the-art for SV genotyping accuracy across different SV call sets, samples and variant types, including a 25% reduction in genotyping errors for the Genome-in-a-Bottle (GIAB) high-confidence SVs. NPSV-deep is not limited to the SVs as described; it improves deletion genotyping concordance a further 1.5 percentage points for GIAB SVs (92%) by automatically correcting imprecise/incorrectly described SVs. AVAILABILITY AND IMPLEMENTATION: Python/C++ source code and pre-trained models freely available at https://github.com/mlinderm/npsv2.

In this article, the concept and definitions of the Fractional Order Moment (FOM) and Fractional Order Cumulant (FOC) are proposed, which is based on the fractional derivative of the fractional order Moment-generating function and the fractional order Cumulant-generating function of stochastic processes. The moment and cumulant are defined on an expanded set from positive integer to the whole positive real. This development not only provides a new technology for signal processing, also complements the existing theory in the field. The properties of the FOC have been derived, and their uniformity and particularity with the High Order Cumulant are compared and commented. In addition, the transformation between the FOM and the FOC are derived and discussed in detail. As one of the applications of the new concept to the α and Gaussian processes, a new method of suppressing α and Gaussian noise is proposed. Furthermore, a FOC-based parameter estimation algorithm is developed for the non-minimum phase ARMA processes in α and/or Gaussian noise. Simulation examples are used to demonstrate the effectiveness of the proposed parameter estimation algorithm.

Abstract This paper proposes a new fault tolerant control scheme for a class of nonlinear systems including robotic systems and aeronautical systems. In this method, a sliding mode control is applied to maintain system stability under the post-fault dynamics. A neural network is used as on-line estimator to reconstruct the change rate of the fault and compensate for the impact of the fault on the system performance. The control law and the neural network learning algorithms are derived using the Lyapunov method, so that the neural estimator is guaranteed to converge to the fault change rate, while the entire closed-loop system stability and tracking control is guaranteed. Compared with the existing methods, the proposed method achieved fault tolerant control for time-varying fault, rather than just constant fault. This greatly expands the industrial applications of the developed method to enhance system reliability. The main contribution and novelty of the developed method is that the system stability is guaranteed and the fault estimation is also guaranteed for convergence when the system subject to a time-varying fault. A simulation example is used to demonstrate the design procedure and the effectiveness of the method. The simulation results demonstrated that the post-fault is stable and the performance is maintained.