LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 4 of total 4

Search options

  1. Article ; Online: Immersive and interactive visualization of 3D spatio-temporal data using a space time hypercube: Application to cell division and morphogenesis analysis.

    Fouché, Gwendal / Argelaguet, Ferran / Faure, Emmanuel / Kervrann, Charles

    Frontiers in bioinformatics

    2023  Volume 3, Page(s) 998991

    Abstract: The analysis of multidimensional time-varying datasets faces challenges, notably regarding the representation of the data and the visualization of temporal variations. We propose an extension of the well-known Space-Time Cube (STC) visualization ... ...

    Abstract The analysis of multidimensional time-varying datasets faces challenges, notably regarding the representation of the data and the visualization of temporal variations. We propose an extension of the well-known Space-Time Cube (STC) visualization technique in order to visualize time-varying 3D spatial data, taking advantage of the interaction capabilities of Virtual Reality (VR). First, we propose the Space-Time Hypercube (STH) as an abstraction for 3D temporal data, extended from the STC concept. Second, through the example of embryo development imaging dataset, we detail the construction and visualization of a STC based on a user-driven projection of the spatial and temporal information. This projection yields a 3D STC visualization, which can also encode additional numerical and categorical data. Additionally, we propose a set of tools allowing the user to filter and manipulate the 3D STC which benefits the visualization, exploration and interaction possibilities offered by VR. Finally, we evaluated the proposed visualization method in the context of 3D temporal cell imaging data analysis, through a user study (n = 5) reporting the feedback from five biologists. These domain experts also accompanied the application design as consultants, providing insights on how the STC visualization could be used for the exploration of complex 3D temporal morphogenesis data.
    Language English
    Publishing date 2023-03-08
    Publishing country Switzerland
    Document type Journal Article
    ISSN 2673-7647
    ISSN (online) 2673-7647
    DOI 10.3389/fbinf.2023.998991
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  2. Book ; Online: Immersive and Interactive Visualization of 3D Spatio-Temporal Data using a Space Time Hypercube

    Fouché, Gwendal / Argelaguet, Ferran / Faure, Emmanuel / Kervrann, Charles

    2022  

    Abstract: We propose an extension of the well-known Space-Time Cube (STC) visualization technique in order to visualize time-varying 3D spatial data, taking advantage of the interaction capabilities of Virtual Reality (VR). The analysis of multidimensional time- ... ...

    Abstract We propose an extension of the well-known Space-Time Cube (STC) visualization technique in order to visualize time-varying 3D spatial data, taking advantage of the interaction capabilities of Virtual Reality (VR). The analysis of multidimensional time-varying datasets, which size grows as recording and simulating techniques advance, faces challenges on the representation and visualization of dense data, as well as on the study of temporal variations. First, we propose the Space-Time Hypercube (STH) as an abstraction for 3D temporal data, extended from the STC concept. Second, through the example of embryo development imaging dataset, we detail the construction and visualization of a STC based on a user-driven projection of the spatial and temporal information. This projection yields a 3D STC visualization, which can also encode additional numerical and categorical data. Additionally, we propose a set of tools allowing the user to filter and manipulate the 3D STC which benefits from the visualization, exploration and interaction possibilities offered by VR. Finally, we evaluated the proposed visualization method in the context of the visualization of spatio-temporal biological data. Several biology experts accompanied the application design to provide insight on how the STC visualization could be used to explore such data. We report a user study (n=12) using non-expert users performing a set of exploration and query tasks to evaluate the system.

    Comment: 21 1-column pages, 7 figures
    Keywords Computer Science - Human-Computer Interaction ; Computer Science - Graphics
    Subject code 004
    Publishing date 2022-06-27
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  3. Book ; Online: Timeline Design Space for Immersive Exploration of Time-Varying Spatial 3D Data

    Fouché, Gwendal / Argelaguet, Ferran / Faure, Emmanuel / Kervrann, Charles

    2022  

    Abstract: Timelines are common visualizations to represent and manipulate temporal data, from historical events storytelling to animation authoring. However, timeline visualizations rarely consider spatio-temporal 3D data (e.g. mesh or volumetric models) directly, ...

    Abstract Timelines are common visualizations to represent and manipulate temporal data, from historical events storytelling to animation authoring. However, timeline visualizations rarely consider spatio-temporal 3D data (e.g. mesh or volumetric models) directly, which are typically explored using 3D visualizers only displaying one time-step at a time. In this paper, leveraging the increased workspace and 3D interaction capabilities of virtual reality, we propose to use timelines for the visualization of 3D temporal data to support exploration and analysis. First, we propose a timeline design space for 3D temporal data extending the timeline design space proposed by Brehmer et al. The proposed design space adapts the scale, layout and representation dimensions to account for the depth dimension and how 3D temporal data can be partitioned and structured. In our approach, an additional dimension is introduced, the support, which further characterizes the 3D dimension of the visualization. To complement the design space and the interaction capabilities of VR systems, we discuss the interaction methods required for the efficient visualization of 3D timelines. Then, to evaluate the benefits of 3D timelines, we conducted a formal evaluation with two main objectives: comparing the proposed visualization with a traditional visualization method; exploring how users interact with different 3D timeline designs. Our results showed that time-related tasks can be achieved more comfortably using timelines, and more efficiently for specific tasks requiring the analysis of the surrounding temporal context. Though the comparison between the different timeline designs were inconclusive, participants reported a clear preference towards the timeline design that did not occupy the vertical space. Finally, we illustrate the use of the 3D timelines to a real use-case on the analysis of biological 3D temporal datasets.

    Comment: 11 pages, 6 figures
    Keywords Computer Science - Human-Computer Interaction ; Computer Science - Graphics
    Subject code 004
    Publishing date 2022-06-20
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  4. Article ; Online: Challenges of intracellular visualization using virtual and augmented reality.

    Valades-Cruz, Cesar Augusto / Leconte, Ludovic / Fouche, Gwendal / Blanc, Thomas / Van Hille, Nathan / Fournier, Kevin / Laurent, Tao / Gallean, Benjamin / Deslandes, Francois / Hajj, Bassam / Faure, Emmanuel / Argelaguet, Ferran / Trubuil, Alain / Isenberg, Tobias / Masson, Jean-Baptiste / Salamero, Jean / Kervrann, Charles

    Frontiers in bioinformatics

    2022  Volume 2, Page(s) 997082

    Abstract: Microscopy image observation is commonly performed on 2D screens, which limits human capacities to grasp volumetric, complex, and discrete biological dynamics. With the massive production of multidimensional images (3D + time, multi-channels) and derived ...

    Abstract Microscopy image observation is commonly performed on 2D screens, which limits human capacities to grasp volumetric, complex, and discrete biological dynamics. With the massive production of multidimensional images (3D + time, multi-channels) and derived images (e.g., restored images, segmentation maps, and object tracks), scientists need appropriate visualization and navigation methods to better apprehend the amount of information in their content. New modes of visualization have emerged, including virtual reality (VR)/augmented reality (AR) approaches which should allow more accurate analysis and exploration of large time series of volumetric images, such as those produced by the latest 3D + time fluorescence microscopy. They include integrated algorithms that allow researchers to interactively explore complex spatiotemporal objects at the scale of single cells or multicellular systems, almost in a real time manner. In practice, however, immersion of the user within 3D + time microscopy data represents both a paradigm shift in human-image interaction and an acculturation challenge, for the concerned community. To promote a broader adoption of these approaches by biologists, further dialogue is needed between the bioimaging community and the VR&AR developers.
    Language English
    Publishing date 2022-09-13
    Publishing country Switzerland
    Document type Journal Article
    ISSN 2673-7647
    ISSN (online) 2673-7647
    DOI 10.3389/fbinf.2022.997082
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

To top