6,334 research outputs found
Principal manifolds and graphs in practice: from molecular biology to dynamical systems
We present several applications of non-linear data modeling, using principal
manifolds and principal graphs constructed using the metaphor of elasticity
(elastic principal graph approach). These approaches are generalizations of the
Kohonen's self-organizing maps, a class of artificial neural networks. On
several examples we show advantages of using non-linear objects for data
approximation in comparison to the linear ones. We propose four numerical
criteria for comparing linear and non-linear mappings of datasets into the
spaces of lower dimension. The examples are taken from comparative political
science, from analysis of high-throughput data in molecular biology, from
analysis of dynamical systems.Comment: 12 pages, 9 figure
The Topology ToolKit
This system paper presents the Topology ToolKit (TTK), a software platform
designed for topological data analysis in scientific visualization. TTK
provides a unified, generic, efficient, and robust implementation of key
algorithms for the topological analysis of scalar data, including: critical
points, integral lines, persistence diagrams, persistence curves, merge trees,
contour trees, Morse-Smale complexes, fiber surfaces, continuous scatterplots,
Jacobi sets, Reeb spaces, and more. TTK is easily accessible to end users due
to a tight integration with ParaView. It is also easily accessible to
developers through a variety of bindings (Python, VTK/C++) for fast prototyping
or through direct, dependence-free, C++, to ease integration into pre-existing
complex systems. While developing TTK, we faced several algorithmic and
software engineering challenges, which we document in this paper. In
particular, we present an algorithm for the construction of a discrete gradient
that complies to the critical points extracted in the piecewise-linear setting.
This algorithm guarantees a combinatorial consistency across the topological
abstractions supported by TTK, and importantly, a unified implementation of
topological data simplification for multi-scale exploration and analysis. We
also present a cached triangulation data structure, that supports time
efficient and generic traversals, which self-adjusts its memory usage on demand
for input simplicial meshes and which implicitly emulates a triangulation for
regular grids with no memory overhead. Finally, we describe an original
software architecture, which guarantees memory efficient and direct accesses to
TTK features, while still allowing for researchers powerful and easy bindings
and extensions. TTK is open source (BSD license) and its code, online
documentation and video tutorials are available on TTK's website
A Stable Multi-Scale Kernel for Topological Machine Learning
Topological data analysis offers a rich source of valuable information to
study vision problems. Yet, so far we lack a theoretically sound connection to
popular kernel-based learning techniques, such as kernel SVMs or kernel PCA. In
this work, we establish such a connection by designing a multi-scale kernel for
persistence diagrams, a stable summary representation of topological features
in data. We show that this kernel is positive definite and prove its stability
with respect to the 1-Wasserstein distance. Experiments on two benchmark
datasets for 3D shape classification/retrieval and texture recognition show
considerable performance gains of the proposed method compared to an
alternative approach that is based on the recently introduced persistence
landscapes
Steered mixture-of-experts for light field images and video : representation and coding
Research in light field (LF) processing has heavily increased over the last decade. This is largely driven by the desire to achieve the same level of immersion and navigational freedom for camera-captured scenes as it is currently available for CGI content. Standardization organizations such as MPEG and JPEG continue to follow conventional coding paradigms in which viewpoints are discretely represented on 2-D regular grids. These grids are then further decorrelated through hybrid DPCM/transform techniques. However, these 2-D regular grids are less suited for high-dimensional data, such as LFs. We propose a novel coding framework for higher-dimensional image modalities, called Steered Mixture-of-Experts (SMoE). Coherent areas in the higher-dimensional space are represented by single higher-dimensional entities, called kernels. These kernels hold spatially localized information about light rays at any angle arriving at a certain region. The global model consists thus of a set of kernels which define a continuous approximation of the underlying plenoptic function. We introduce the theory of SMoE and illustrate its application for 2-D images, 4-D LF images, and 5-D LF video. We also propose an efficient coding strategy to convert the model parameters into a bitstream. Even without provisions for high-frequency information, the proposed method performs comparable to the state of the art for low-to-mid range bitrates with respect to subjective visual quality of 4-D LF images. In case of 5-D LF video, we observe superior decorrelation and coding performance with coding gains of a factor of 4x in bitrate for the same quality. At least equally important is the fact that our method inherently has desired functionality for LF rendering which is lacking in other state-of-the-art techniques: (1) full zero-delay random access, (2) light-weight pixel-parallel view reconstruction, and (3) intrinsic view interpolation and super-resolution
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