Related papers: Shu: Visualization of high dimensional biological …
This report presents the development and results of an advanced SPH (Smoothed Particle Hydrodynamics) simulation framework, designed for high fidelity fluid dynamics modeling. Our framework, accessible at…
To assist residents affected by oil and gas development, public health professionals in a non-profit organization have collected community data, including symptoms, air quality, and personal stories. However, the organization was unable to…
Hillview is a distributed spreadsheet for browsing very large datasets that cannot be handled by a single machine. As a spreadsheet, Hillview provides a high degree of interactivity that permits data analysts to explore information quickly…
Large-scale simulation studies can provide invaluable insights across computational engineering efforts, but they are often computationally demanding, requiring the use of distributed computing, which is itself not a simple task.…
PlayMolecule Viewer is a web-based data visualization toolkit designed to streamline the exploration of data resulting from structural bioinformatics or computer-aided drug design efforts. By harnessing state-of-the-art web technologies…
We present a convenient, all-in-one framework for the scientific analysis of fully reduced, (integral-field) spectroscopic data. The GIST pipeline (Galaxy IFU Spectroscopy Tool) is entirely written in Python3 and conducts all steps from the…
Understanding and tuning the performance of extreme-scale parallel computing systems demands a streaming approach due to the computational cost of applying offline algorithms to vast amounts of performance log data. Analyzing large…
We present a flexible illustrative line style model for the visualization of streamline data. Our model partitions view-oriented line strips into parallel bands whose basic visual properties can be controlled independently. We thus extend…
We introduce PathBench-MIL, an open-source AutoML and benchmarking framework for multiple instance learning (MIL) in histopathology. The system automates end-to-end MIL pipeline construction, including preprocessing, feature extraction, and…
Understanding the behaviour of biological systems requires a complex setting of in vitro and in vivo experiments, which attracts high costs in terms of time and resources. The use of mathematical models allows researchers to perform…
The visualization of hierarchically structured data over time is an ongoing challenge and several approaches exist trying to solve it. Techniques such as animated or juxtaposed tree visualizations are not capable of providing a good…
BHAM is a freely avaible R pakcage that implments Bayesian hierarchical additive models for high-dimensional clinical and genomic data. The package includes functions that generalized additive model, and Cox additive model with the…
Physicians work at a very tight schedule and need decision-making support tools to help on improving and doing their work in a timely and dependable manner. Examining piles of sheets with test results and using systems with little…
X-ray ptychography imaging at synchrotron facilities like the Advanced Photon Source (APS) involves controlling instrument hardwares to collect a set of diffraction patterns from overlapping coherent illumination spots on extended samples,…
In this paper we introduce WiNV - A framework for web-based interactive scalable network visualization. WiNV enables a new class of rich and scalable interactive cross-platform capabilities for visualizing large-scale networks natively in a…
We present a parallel visualization algorithm for the illustrative rendering of depth-dependent stylized dense tube data at interactive frame rates. While this computation could be efficiently performed on a GPU device, we target a parallel…
Stream-based runtime monitors are used in safety-critical applications such as Unmanned Aerial Systems (UAS) to compute comprehensive statistics and logical assessments of system health that provide the human operator with critical…
The recent advancements in multicore machines highlight the need to simplify concurrent programming in order to leverage their computational power. One way to achieve this is by designing efficient concurrent data structures (e.g. stacks,…
Summary: Uchimata is a toolkit for visualization of 3D structures of genomes. It consists of two packages: a Javascript library facilitating the rendering of 3D models of genomes, and a Python widget for visualization in Jupyter Notebooks.…
Drawing and visualisation of molecular structures are some of the most common tasks carried out in structural glycobiology, typically using various software. In this perspective article, we outline developments in the computational tools…