427,573 research outputs found
Improving Big Data Visual Analytics with Interactive Virtual Reality
For decades, the growth and volume of digital data collection has made it
challenging to digest large volumes of information and extract underlying
structure. Coined 'Big Data', massive amounts of information has quite often
been gathered inconsistently (e.g from many sources, of various forms, at
different rates, etc.). These factors impede the practices of not only
processing data, but also analyzing and displaying it in an efficient manner to
the user. Many efforts have been completed in the data mining and visual
analytics community to create effective ways to further improve analysis and
achieve the knowledge desired for better understanding. Our approach for
improved big data visual analytics is two-fold, focusing on both visualization
and interaction. Given geo-tagged information, we are exploring the benefits of
visualizing datasets in the original geospatial domain by utilizing a virtual
reality platform. After running proven analytics on the data, we intend to
represent the information in a more realistic 3D setting, where analysts can
achieve an enhanced situational awareness and rely on familiar perceptions to
draw in-depth conclusions on the dataset. In addition, developing a
human-computer interface that responds to natural user actions and inputs
creates a more intuitive environment. Tasks can be performed to manipulate the
dataset and allow users to dive deeper upon request, adhering to desired
demands and intentions. Due to the volume and popularity of social media, we
developed a 3D tool visualizing Twitter on MIT's campus for analysis. Utilizing
emerging technologies of today to create a fully immersive tool that promotes
visualization and interaction can help ease the process of understanding and
representing big data.Comment: 6 pages, 8 figures, 2015 IEEE High Performance Extreme Computing
Conference (HPEC '15); corrected typo
Vaex: Big Data exploration in the era of Gaia
We present a new Python library called vaex, to handle extremely large
tabular datasets, such as astronomical catalogues like the Gaia catalogue,
N-body simulations or any other regular datasets which can be structured in
rows and columns. Fast computations of statistics on regular N-dimensional
grids allows analysis and visualization in the order of a billion rows per
second. We use streaming algorithms, memory mapped files and a zero memory copy
policy to allow exploration of datasets larger than memory, e.g. out-of-core
algorithms. Vaex allows arbitrary (mathematical) transformations using normal
Python expressions and (a subset of) numpy functions which are lazily evaluated
and computed when needed in small chunks, which avoids wasting of RAM. Boolean
expressions (which are also lazily evaluated) can be used to explore subsets of
the data, which we call selections. Vaex uses a similar DataFrame API as
Pandas, a very popular library, which helps migration from Pandas.
Visualization is one of the key points of vaex, and is done using binned
statistics in 1d (e.g. histogram), in 2d (e.g. 2d histograms with colormapping)
and 3d (using volume rendering). Vaex is split in in several packages:
vaex-core for the computational part, vaex-viz for visualization mostly based
on matplotlib, vaex-jupyter for visualization in the Jupyter notebook/lab based
in IPyWidgets, vaex-server for the (optional) client-server communication,
vaex-ui for the Qt based interface, vaex-hdf5 for hdf5 based memory mapped
storage, vaex-astro for astronomy related selections, transformations and
memory mapped (column based) fits storage. Vaex is open source and available
under MIT license on github, documentation and other information can be found
on the main website: https://vaex.io, https://docs.vaex.io or
https://github.com/maartenbreddels/vaexComment: 14 pages, 8 figures, Submitted to A&A, interactive version of Fig 4:
https://vaex.io/paper/fig
Living Liquid Crystals
Collective motion of self-propelled organisms or synthetic particles often
termed active fluid has attracted enormous attention in broad scientific
community because of it fundamentally non-equilibrium nature. Energy input and
interactions among the moving units and the medium lead to complex dynamics.
Here we introduce a new class of active matter, living liquid crystals (LLCs)
that combine living swimming bacteria with a lyotropic liquid crystal. The
physical properties of LLCs can be controlled by the amount of oxygen available
to bacteria, by concentration of ingredients, or by temperature. Our studies
reveal a wealth of new intriguing dynamic phenomena, caused by the coupling
between the activity-triggered flow and long-range orientational order of the
medium. Among these are (a) non-linear trajectories of bacterial motion guided
by non-uniform director, (b) local melting of the liquid crystal caused by the
bacteria-produced shear flows, (c) activity-triggered transition from a
non-flowing uniform state into a flowing one-dimensional periodic pattern and
its evolution into a turbulent array of topological defects, (d)
birefringence-enabled visualization of microflow generated by the
nanometers-thick bacterial flagella. Unlike their isotropic counterpart, the
LLCs show collective dynamic effects at very low volume fraction of bacteria,
on the order of 0.2%. Our work suggests an unorthodox design concept to control
and manipulate the dynamic behavior of soft active matter and opens the door
for potential biosensing and biomedical applications.Comment: 32 pages, 8 figures, Supporting Information include
Validation of percutaneous puncture trajectory during renal access using 4D ultrasound reconstruction
"Progress in Biomedical Optics and Imaging, vol. 16, nr. 43"Background: An accurate percutaneous puncture is essential for disintegration and removal of renal stones. Although this procedure has proven to be safe, some organs surrounding the renal target might be accidentally perforated. This work describes a new intraoperative framework where tracked surgical tools are superimposed within 4D ultrasound imaging for security assessment of the percutaneous puncture trajectory (PPT). Methods: A PPT is first generated from the skin puncture site towards an anatomical target, using the information retrieved by electromagnetic motion tracking sensors coupled to surgical tools. Then, 2D ultrasound images acquired with a tracked probe are used to reconstruct a 4D ultrasound around the PPT under GPU processing. Volume hole-filling was performed in different processing time intervals by a tri-linear interpolation method. At spaced time intervals, the volume of the anatomical structures was segmented to ascertain if any vital structure is in between PPT and might compromise the surgical success. To enhance the volume visualization of the reconstructed structures, different render transfer functions were used. Results: Real-time US volume reconstruction and rendering with more than 25 frames/s was only possible when rendering only three orthogonal slice views. When using the whole reconstructed volume one achieved 8-15 frames/s. 3 frames/s were reached when one introduce the segmentation and detection if some structure intersected the PPT. Conclusions: The proposed framework creates a virtual and intuitive platform that can be used to identify and validate a PPT to safely and accurately perform the puncture in percutaneous nephrolithotomy.The authors acknowledge to Foundation for Science and Technology (FCT) - Portugal for the fellowships with
references: SFRH/BD/74276/2010.info:eu-repo/semantics/publishedVersio
Inviwo -- A Visualization System with Usage Abstraction Levels
The complexity of today's visualization applications demands specific
visualization systems tailored for the development of these applications.
Frequently, such systems utilize levels of abstraction to improve the
application development process, for instance by providing a data flow network
editor. Unfortunately, these abstractions result in several issues, which need
to be circumvented through an abstraction-centered system design. Often, a high
level of abstraction hides low level details, which makes it difficult to
directly access the underlying computing platform, which would be important to
achieve an optimal performance. Therefore, we propose a layer structure
developed for modern and sustainable visualization systems allowing developers
to interact with all contained abstraction levels. We refer to this interaction
capabilities as usage abstraction levels, since we target application
developers with various levels of experience. We formulate the requirements for
such a system, derive the desired architecture, and present how the concepts
have been exemplary realized within the Inviwo visualization system.
Furthermore, we address several specific challenges that arise during the
realization of such a layered architecture, such as communication between
different computing platforms, performance centered encapsulation, as well as
layer-independent development by supporting cross layer documentation and
debugging capabilities
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