Kernel Conjugate Gradient Methods with Random Projections

We propose and study kernel conjugate gradient methods (KCGM) with random projections for least-squares regression over a separable Hilbert space. Considering two types of random projections generated by randomized sketches and Nystr\"{o}m subsampling, we prove optimal statistical results with respect to variants of norms for the algorithms under a suitable stopping rule. Particularly, our results show that if the projection dimension is proportional to the effective dimension of the problem, KCGM with randomized sketches can generalize optimally, while achieving a computational advantage. As a corollary, we derive optimal rates for classic KCGM in the case that the target function may not be in the hypothesis space, filling a theoretical gap.Comment: 43 pages, 2 figure

FALKON: An Optimal Large Scale Kernel Method

Kernel methods provide a principled way to perform non linear, nonparametric learning. They rely on solid functional analytic foundations and enjoy optimal statistical properties. However, at least in their basic form, they have limited applicability in large scale scenarios because of stringent computational requirements in terms of time and especially memory. In this paper, we take a substantial step in scaling up kernel methods, proposing FALKON, a novel algorithm that allows to efficiently process millions of points. FALKON is derived combining several algorithmic principles, namely stochastic subsampling, iterative solvers and preconditioning. Our theoretical analysis shows that optimal statistical accuracy is achieved requiring essentially $O(n)$ memory and $O(n\sqrt{n})$ time. An extensive experimental analysis on large scale datasets shows that, even with a single machine, FALKON outperforms previous state of the art solutions, which exploit parallel/distributed architectures.Comment: NIPS 201

A randomized Kaczmarz algorithm with exponential convergence

The Kaczmarz method for solving linear systems of equations is an iterative algorithm that has found many applications ranging from computer tomography to digital signal processing. Despite the popularity of this method, useful theoretical estimates for its rate of convergence are still scarce. We introduce a randomized version of the Kaczmarz method for consistent, overdetermined linear systems and we prove that it converges with expected exponential rate. Furthermore, this is the first solver whose rate does not depend on the number of equations in the system. The solver does not even need to know the whole system, but only a small random part of it. It thus outperforms all previously known methods on general extremely overdetermined systems. Even for moderately overdetermined systems, numerical simulations as well as theoretical analysis reveal that our algorithm can converge faster than the celebrated conjugate gradient algorithm. Furthermore, our theory and numerical simulations confirm a prediction of Feichtinger et al. in the context of reconstructing bandlimited functions from nonuniform sampling

Structural Variability from Noisy Tomographic Projections

In cryo-electron microscopy, the 3D electric potentials of an ensemble of molecules are projected along arbitrary viewing directions to yield noisy 2D images. The volume maps representing these potentials typically exhibit a great deal of structural variability, which is described by their 3D covariance matrix. Typically, this covariance matrix is approximately low-rank and can be used to cluster the volumes or estimate the intrinsic geometry of the conformation space. We formulate the estimation of this covariance matrix as a linear inverse problem, yielding a consistent least-squares estimator. For $n$ images of size $N$-by-$N$ pixels, we propose an algorithm for calculating this covariance estimator with computational complexity $\mathcal{O}(nN^4+\sqrt{\kappa}N^6 \log N)$, where the condition number $\kappa$ is empirically in the range $10$--$200$. Its efficiency relies on the observation that the normal equations are equivalent to a deconvolution problem in 6D. This is then solved by the conjugate gradient method with an appropriate circulant preconditioner. The result is the first computationally efficient algorithm for consistent estimation of 3D covariance from noisy projections. It also compares favorably in runtime with respect to previously proposed non-consistent estimators. Motivated by the recent success of eigenvalue shrinkage procedures for high-dimensional covariance matrices, we introduce a shrinkage procedure that improves accuracy at lower signal-to-noise ratios. We evaluate our methods on simulated datasets and achieve classification results comparable to state-of-the-art methods in shorter running time. We also present results on clustering volumes in an experimental dataset, illustrating the power of the proposed algorithm for practical determination of structural variability.Comment: 52 pages, 11 figure