EffiTest: Efficient Delay Test and Statistical Prediction for Configuring Post-silicon Tunable Buffers

At nanometer manufacturing technology nodes, process variations significantly affect circuit performance. To combat them, post- silicon clock tuning buffers can be deployed to balance timing bud- gets of critical paths for each individual chip after manufacturing. The challenge of this method is that path delays should be mea- sured for each chip to configure the tuning buffers properly. Current methods for this delay measurement rely on path-wise frequency stepping. This strategy, however, requires too much time from ex- pensive testers. In this paper, we propose an efficient delay test framework (EffiTest) to solve the post-silicon testing problem by aligning path delays using the already-existing tuning buffers in the circuit. In addition, we only test representative paths and the delays of other paths are estimated by statistical delay prediction. Exper- imental results demonstrate that the proposed method can reduce the number of frequency stepping iterations by more than 94% with only a slight yield loss.Comment: ACM/IEEE Design Automation Conference (DAC), June 201

Principal component analysis - an efficient tool for variable stars diagnostics

We present two diagnostic methods based on ideas of Principal Component Analysis and demonstrate their efficiency for sophisticated processing of multicolour photometric observations of variable objects.Comment: 8 pages, 4 figures. Published alread

Principal Component Analysis with Noisy and/or Missing Data

We present a method for performing Principal Component Analysis (PCA) on noisy datasets with missing values. Estimates of the measurement error are used to weight the input data such that compared to classic PCA, the resulting eigenvectors are more sensitive to the true underlying signal variations rather than being pulled by heteroskedastic measurement noise. Missing data is simply the limiting case of weight=0. The underlying algorithm is a noise weighted Expectation Maximization (EM) PCA, which has additional benefits of implementation speed and flexibility for smoothing eigenvectors to reduce the noise contribution. We present applications of this method on simulated data and QSO spectra from the Sloan Digital Sky Survey.Comment: Accepted for publication in PASP; v2 with minor updates, mostly to bibliograph

Significance analysis and statistical mechanics: an application to clustering

This paper addresses the statistical significance of structures in random data: Given a set of vectors and a measure of mutual similarity, how likely does a subset of these vectors form a cluster with enhanced similarity among its elements? The computation of this cluster p-value for randomly distributed vectors is mapped onto a well-defined problem of statistical mechanics. We solve this problem analytically, establishing a connection between the physics of quenched disorder and multiple testing statistics in clustering and related problems. In an application to gene expression data, we find a remarkable link between the statistical significance of a cluster and the functional relationships between its genes.Comment: to appear in Phys. Rev. Let

Elastodynamics of radially inhomogeneous spherically anisotropic elastic materials in the Stroh formalism

A method is presented for solving elastodynamic problems in radially inhomogeneous elastic materials with spherical anisotropy, i.e.\ materials such that $c_{ijkl}= c_{ijkl}(r)$ in a spherical coordinate system ${r,\theta,\phi}$. The time harmonic displacement field $\mathbf{u}(r,\theta ,\phi)$ is expanded in a separation of variables form with dependence on $\theta,\phi$ described by vector spherical harmonics with $r$-dependent amplitudes. It is proved that such separation of variables solution is generally possible only if the spherical anisotropy is restricted to transverse isotropy with the principal axis in the radial direction, in which case the amplitudes are determined by a first-order ordinary differential system. Restricted forms of the displacement field, such as $\mathbf{u}(r,\theta)$, admit this type of separation of variables solutions for certain lower material symmetries. These results extend the Stroh formalism of elastodynamics in rectangular and cylindrical systems to spherical coordinates.Comment: 15 page

Equitability revisited: why the “equitable threat score” is not equitable

In the forecasting of binary events, verification measures that are “equitable” were defined by Gandin and Murphy to satisfy two requirements: 1) they award all random forecasting systems, including those that always issue the same forecast, the same expected score (typically zero), and 2) they are expressible as the linear weighted sum of the elements of the contingency table, where the weights are independent of the entries in the table, apart from the base rate. The authors demonstrate that the widely used “equitable threat score” (ETS), as well as numerous others, satisfies neither of these requirements and only satisfies the first requirement in the limit of an infinite sample size. Such measures are referred to as “asymptotically equitable.” In the case of ETS, the expected score of a random forecasting system is always positive and only falls below 0.01 when the number of samples is greater than around 30. Two other asymptotically equitable measures are the odds ratio skill score and the symmetric extreme dependency score, which are more strongly inequitable than ETS, particularly for rare events; for example, when the base rate is 2% and the sample size is 1000, random but unbiased forecasting systems yield an expected score of around −0.5, reducing in magnitude to −0.01 or smaller only for sample sizes exceeding 25 000. This presents a problem since these nonlinear measures have other desirable properties, in particular being reliable indicators of skill for rare events (provided that the sample size is large enough). A potential way to reconcile these properties with equitability is to recognize that Gandin and Murphy’s two requirements are independent, and the second can be safely discarded without losing the key advantages of equitability that are embodied in the first. This enables inequitable and asymptotically equitable measures to be scaled to make them equitable, while retaining their nonlinearity and other properties such as being reliable indicators of skill for rare events. It also opens up the possibility of designing new equitable verification measures

High-Dimensional Inference with the generalized Hopfield Model: Principal Component Analysis and Corrections

We consider the problem of inferring the interactions between a set of N binary variables from the knowledge of their frequencies and pairwise correlations. The inference framework is based on the Hopfield model, a special case of the Ising model where the interaction matrix is defined through a set of patterns in the variable space, and is of rank much smaller than N. We show that Maximum Lik elihood inference is deeply related to Principal Component Analysis when the amp litude of the pattern components, xi, is negligible compared to N^1/2. Using techniques from statistical mechanics, we calculate the corrections to the patterns to the first order in xi/N^1/2. We stress that it is important to generalize the Hopfield model and include both attractive and repulsive patterns, to correctly infer networks with sparse and strong interactions. We present a simple geometrical criterion to decide how many attractive and repulsive patterns should be considered as a function of the sampling noise. We moreover discuss how many sampled configurations are required for a good inference, as a function of the system size, N and of the amplitude, xi. The inference approach is illustrated on synthetic and biological data.Comment: Physical Review E: Statistical, Nonlinear, and Soft Matter Physics (2011) to appea

Mesoscopic Model for Free Energy Landscape Analysis of DNA sequences

A mesoscopic model which allows us to identify and quantify the strength of binding sites in DNA sequences is proposed. The model is based on the Peyrard-Bishop-Dauxois model for the DNA chain coupled to a Brownian particle which explores the sequence interacting more importantly with open base pairs of the DNA chain. We apply the model to promoter sequences of different organisms. The free energy landscape obtained for these promoters shows a complex structure that is strongly connected to their biological behavior. The analysis method used is able to quantify free energy differences of sites within genome sequences.Comment: 7 pages, 5 figures, 1 tabl

Removal of Spectro-Polarimetric Fringes by 2D Pattern Recognition

We present a pattern-recognition based approach to the problem of removal of polarized fringes from spectro-polarimetric data. We demonstrate that 2D Principal Component Analysis can be trained on a given spectro-polarimetric map in order to identify and isolate fringe structures from the spectra. This allows us in principle to reconstruct the data without the fringe component, providing an effective and clean solution to the problem. The results presented in this paper point in the direction of revising the way that science and calibration data should be planned for a typical spectro-polarimetric observing run.Comment: ApJ, in pres