International audience

We present a novel clustering algorithm, visClust, that is based on lower dimensional data representations and visual interpretation. Thereto, we design a transformation that allows the data to be represented by a binary integer array enabling the use of image processing methods to select a partition. Qualitative and quantitative analyses measured in accuracy and an adjusted Rand-Index show that the algorithm performs well while requiring low runtime as well as RAM. We compare the results to 6 state-of-the-art algorithms with available code, confirming the quality of visClust by superior performance in most experiments. Moreover, the algorithm asks for just one obligatory input parameter while allowing optimization via optional parameters. The code is made available on GitHub and straightforward to use.

What makes waveform-based deep learning so hard? Despite numerous attempts at training convolutional neural networks (convnets) for filterbank design, they often fail to outperform hand-crafted baselines. These baselines are linear time-invariant systems: as such, they can be approximated by convnets with wide receptive fields. Yet, in practice, gradient-based optimization leads to suboptimal results. In our article, we approach this problem from the perspective of initialization. We present a theory of large deviations for the energy response of FIR filterbanks with random Gaussian weights. We find that deviations worsen for large filters and locally periodic input signals, which are both typical for audio signal processing applications. Numerical simulations align with our theory and suggest that the condition number of a convolutional layer follows a logarithmic scaling law between the number and length of the filters, which is reminiscent of discrete wavelet bases.

The paper uses a frame-theoretic setting to study the injectivity of a ReLU-layer on the closed ball of $\mathbb{R}^n$ and its non-negative part. In particular, the interplay between the radius of the ball and the bias vector is emphasized. Together with a perspective from convex geometry, this leads to a computationally feasible method of verifying the injectivity of a ReLU-layer under reasonable restrictions in terms of an upper bound of the bias vector. Explicit reconstruction formulas are provided, inspired by the duality concept from frame theory. All this gives rise to the possibility of quantifying the invertibility of a ReLU-layer and a concrete reconstruction algorithm for any input vector on the ball.

We consider signal reconstruction from the norms of subspace components generalizing standard phase retrieval problems. In the deterministic setting, a closed reconstruction formula is derived when the subspaces satisfy certain cubature conditions, that require at least a quadratic number of subspaces. Moreover, we address reconstruction under the erasure of a subset of the norms; using the concepts of p -fusion frames and list decoding, we propose an algorithm that outputs a finite list of candidate signals, one of which is the correct one. In the random setting, we show that a set of subspaces chosen at random and of cardinality scaling linearly in the ambient dimension allows for exact reconstruction with high probability by solving the feasibility problem of a semidefinite program.

We study phase retrieval from magnitude measurements of an unknown signal as an algebraic estimation problem. Indeed, phase retrieval from rank-one and more general linear measurements can be treated in an algebraic way. It is verified that a certain number of generic rank-one or generic linear measurements are sufficient to enable signal reconstruction for generic signals, and slightly more generic measurements yield reconstructability for all signals. Our results solve few open problems stated in the recent literature. Furthermore, we show how the algebraic estimation problem can be solved by a closed-form algebraic estimation technique, termed ideal regression, providing non-asymptotic success guarantees.

We introduce Schroedinger Eigenmaps (SE), a new semi-supervised manifold learning and recovery technique. This method is based on an implementation of graph Schroedinger operators with appropriately constructed barrier potentials as carriers of labeled information. We use our approach for the analysis of standard biomedical datasets and new multispectral retinal images.

A novel algorithm for endmember extraction is presented. The approach follows the linear mixture model for hyperspectral data. Endmembers are identified based on sparsity consideration. Theoretical and experimental results suggest the potential of the method.

BACKGROUND: The Gene Ontology (GO) Consortium organizes genes into hierarchical categories based on biological process, molecular function and subcellular localization. Tools such as GoMiner can leverage GO to perform ontological analysis of microarray and proteomics studies, typically generating a list of significant functional categories. Two or more of the categories are often redundant, in the sense that identical or nearly-identical sets of genes map to the categories. The redundancy might typically inflate the report of significant categories by a factor of three-fold, create an illusion of an overly long list of significant categories, and obscure the relevant biological interpretation. RESULTS: We now introduce a new resource, RedundancyMiner, that de-replicates the redundant and nearly-redundant GO categories that had been determined by first running GoMiner. The main algorithm of RedundancyMiner, MultiClust, performs a novel form of cluster analysis in which a GO category might belong to several category clusters. Each category cluster follows a "complete linkage" paradigm. The metric is a similarity measure that captures the overlap in gene mapping between pairs of categories. CONCLUSIONS: RedundancyMiner effectively eliminated redundancies from a set of GO categories. For illustration, we have applied it to the clarification of the results arising from two current studies: (1) assessment of the gene expression profiles obtained by laser capture microdissection (LCM) of serial cryosections of the retina at the site of final optic fissure closure in the mouse embryos at specific embryonic stages, and (2) analysis of a conceptual data set obtained by examining a list of genes deemed to be "kinetochore" genes.