Related papers: Shu: Visualization of high dimensional biological …
This article presents a novel visualization approach for dynamic graphs, the versinus method, specially useful for real world networks exhibiting free-scale properties. With a simple and fixed layout, and a small set of visual markups, the…
Artificial intelligence (AI) techniques are widely applied in the life sciences. However, applying innovative AI techniques to understand and deconvolute biological complexity is hindered by the learning curve for life science scientists to…
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…
Histograms provide a powerful means of summarizing large data sets by representing their distribution in a compact, binned form. The HistogramTools R package enhances R built-in histogram functionality, offering advanced methods for…
Rapid visualization of large-scale spatial vector data is a long-standing challenge in Geographic Information Science. In existing methods, the computation overheads grow rapidly with data volumes, leading to the incapability of providing…
VTX is an open-source molecular visualization software designed to overcome the scaling limitations of existing real-time molecular visualization software when handling massive molecular datasets. VTX employs a meshless molecular graphics…
Mayavi is an open-source, general-purpose, 3D scientific visualization package. It seeks to provide easy and interactive tools for data visualization that fit with the scientific user's workflow. For this purpose, Mayavi provides several…
Graph simulation (using graph schemata or data guides) has been successfully proposed as a technique for adding structure to semistructured data. Design patterns for description (such as meta-classes and homomorphisms between schema…
A Whole Slide Image (WSI) is a high-resolution digital image created by scanning an entire glass slide containing a biological specimen, such as tissue sections or cell samples, at multiple magnifications. These images are digitally…
The evolution of decentralized microservice-based systems is challenging. These challenges are classified into static and dynamic categories. Regarding the static perspective, documenting and visualizing the fluid application topology is…
Traditional visualisations are designed to be shown on a flat surface (screen or page) but most data is not "flat". For example, the surface of the earth exists on a sphere, however, when that surface is presented on a flat map, key…
We present a method for producing documentary-style content using real-time scientific visualization. We produce molecumentaries, i.e., molecular documentaries featuring structural models from molecular biology. We employ scalable methods…
The field of structural bioinformatics has seen significant advances with the use of Molecular Dynamics (MD) simulations of biological systems. The MD methodology has allowed to explain and discover molecular mechanisms in a wide range of…
We identify two major steps in data analysis, data exploration for understanding and observing patterns/relationships in data; and construction, design and assessment of various models to formalize these relationships. For each step, there…
The study of trajectories is often a core task in several research fields. In environmental modelling, trajectories are crucial to study fluid pollution, animal migrations, oil slick patterns or land movements. In this contribution, we…
We introduce an open source python framework named PHS - Parallel Hyperparameter Search to enable hyperparameter optimization on numerous compute instances of any arbitrary python function. This is achieved with minimal modifications inside…
The amount of data in the world is expanding rapidly. Every day, huge amounts of data are created by scientific experiments, companies, and end users' activities. These large data sets have been labeled as "Big Data", and their storage,…
The scientific community is presently witnessing an unprecedented growth in the quality and quantity of data sets coming from simulations and real-world experiments. To access effectively and extract the scientific content of such…
We present an overview of Sherpa, an open source Python project, and discuss its development history, broad design concepts and capabilities. Sherpa contains powerful tools for combining parametric models into complex expressions that can…
It has been shown that genome spatial structures largely affect both genome activity and DNA function. Knowing this, many researchers are currently attempting to accurately model genome structures. Despite these increased efforts there…