54,243 research outputs found
Hardware-accelerated interactive data visualization for neuroscience in Python.
Large datasets are becoming more and more common in science, particularly in neuroscience where experimental techniques are rapidly evolving. Obtaining interpretable results from raw data can sometimes be done automatically; however, there are numerous situations where there is a need, at all processing stages, to visualize the data in an interactive way. This enables the scientist to gain intuition, discover unexpected patterns, and find guidance about subsequent analysis steps. Existing visualization tools mostly focus on static publication-quality figures and do not support interactive visualization of large datasets. While working on Python software for visualization of neurophysiological data, we developed techniques to leverage the computational power of modern graphics cards for high-performance interactive data visualization. We were able to achieve very high performance despite the interpreted and dynamic nature of Python, by using state-of-the-art, fast libraries such as NumPy, PyOpenGL, and PyTables. We present applications of these methods to visualization of neurophysiological data. We believe our tools will be useful in a broad range of domains, in neuroscience and beyond, where there is an increasing need for scalable and fast interactive visualization
Steklov Spectral Geometry for Extrinsic Shape Analysis
We propose using the Dirichlet-to-Neumann operator as an extrinsic
alternative to the Laplacian for spectral geometry processing and shape
analysis. Intrinsic approaches, usually based on the Laplace-Beltrami operator,
cannot capture the spatial embedding of a shape up to rigid motion, and many
previous extrinsic methods lack theoretical justification. Instead, we consider
the Steklov eigenvalue problem, computing the spectrum of the
Dirichlet-to-Neumann operator of a surface bounding a volume. A remarkable
property of this operator is that it completely encodes volumetric geometry. We
use the boundary element method (BEM) to discretize the operator, accelerated
by hierarchical numerical schemes and preconditioning; this pipeline allows us
to solve eigenvalue and linear problems on large-scale meshes despite the
density of the Dirichlet-to-Neumann discretization. We further demonstrate that
our operators naturally fit into existing frameworks for geometry processing,
making a shift from intrinsic to extrinsic geometry as simple as substituting
the Laplace-Beltrami operator with the Dirichlet-to-Neumann operator.Comment: Additional experiments adde
Fluorescence2D: Software for Accelerated Acquisition and Analysis of Two-Dimensional Fluorescence Spectra
The Fluorescence2D is free software that allows analysis of two-dimensional fluorescence spectra obtained using the accelerated ātriangularā acquisition schemes. The software is a combination of Python and MATLAB-based programs that perform conversion of the triangular data, display of the two-dimensional spectra, extraction of 1D slices at different wavelengths, and output in various graphic formats
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