33 citations · 69 across the 8 of their papers we have counts for
9 papers
MesoCraft: a web-based tool for interactive procedural modeling of mesoscale biological structures
Donggang Jia, Alexandre Kouyoumdjian, Ondrej Strnad +8
Biological models bring the molecular world of cells into view, enabling experts and the public to explore and understand biological discoveries. Building mesoscale models requires…
Nanouniverse: Virtual Instancing of Structural Detail and Adaptive Shell Mapping
Ruwayda Alharbi, Ondřej Strnad, Markus Hadwiger +1
Rendering huge biological scenes with atomistic detail presents a significant challenge in molecular visualization due to the memory limitations inherent in traditional rendering a…
DiffFit: Visually-Guided Differentiable Fitting of Molecule Structures to a Cryo-EM Map
Deng Luo, Zainab Alsuwaykit, Dawar Khan +3
We introduce DiffFit, a differentiable algorithm for fitting protein atomistic structures into an experimental reconstructed Cryo-Electron Microscopy (cryo-EM) volume map. In struc…
VOICE: Visual Oracle for Interaction, Conversation, and Explanation
Donggang Jia, Alexandra Irger, Lonni Besancon +5
We present VOICE, a novel approach to science communication that connects large language models' (LLM) conversational capabilities with interactive exploratory visualization. VOICE…
Volume Conductor: Interactive Visibility Management for Crowded Volumes
Žiga Lesar, Ruwayda Alharbi, Ciril Bohak +4
We present a novel smart visibility system for visualizing crowded volumetric data containing many object instances. The presented approach allows users to form groups of objects t…
SynopSet: Multiscale Visual Abstraction Set for Explanatory Analysis of DNA Nanotechnology Simulations
Deng Luo, Alexandre Kouyoumdjian, Ondřej Strnad +3
We propose a new abstraction set (SynopSet) that has a continuum of visual representations for the explanatory analysis of molecular dynamics simulations (MDS) in the DNA nanotechn…
Nanomatrix: Scalable Construction of Crowded Biological Environments
Ruwayda Alharbi, Ondřej Strnad, Tobias Klein +1
We present a novel method for the interactive construction and rendering of extremely large molecular scenes, capable of representing multiple biological cells in atomistic detail.…
Molecumentary: Scalable Narrated Documentaries Using Molecular Visualization
David Kouřil, Ondřej Strnad, Peter Mindek +4
We present a method for producing documentary-style content using real-time scientific visualization. We produce molecumentaries, i.e., molecular documentaries featuring structural…
Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models
Ngan Nguyen, Ondrej Strnad, Tobias Klein +8
We present a new technique for rapid modeling and construction of scientifically accurate mesoscale biological models. Resulting 3D models are based on few 2D microscopy scans and…