Cargando…

webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images

The popularity of mesoscopic whole-brain imaging techniques has increased dramatically, but these techniques generate teravoxel-sized volumetric image data. Visualizing or interacting with these massive data is both necessary and essential in the bioimage analysis pipeline; however, due to their siz...

Descripción completa

Detalles Bibliográficos
Autores principales: Li, Yuxin, Li, Anan, Li, Junhuai, Zhou, Hongfang, Cao, Ting, Wang, Huaijun, Wang, Kan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7838507/
https://www.ncbi.nlm.nih.gov/pubmed/33519408
http://dx.doi.org/10.3389/fninf.2020.542169
_version_ 1783643194539376640
author Li, Yuxin
Li, Anan
Li, Junhuai
Zhou, Hongfang
Cao, Ting
Wang, Huaijun
Wang, Kan
author_facet Li, Yuxin
Li, Anan
Li, Junhuai
Zhou, Hongfang
Cao, Ting
Wang, Huaijun
Wang, Kan
author_sort Li, Yuxin
collection PubMed
description The popularity of mesoscopic whole-brain imaging techniques has increased dramatically, but these techniques generate teravoxel-sized volumetric image data. Visualizing or interacting with these massive data is both necessary and essential in the bioimage analysis pipeline; however, due to their size, researchers have difficulty using typical computers to process them. The existing solutions do not consider applying web visualization and three-dimensional (3D) volume rendering methods simultaneously to reduce the number of data copy operations and provide a better way to visualize 3D structures in bioimage data. Here, we propose webTDat, an open-source, web-based, real-time 3D visualization framework for mesoscopic-scale whole-brain imaging datasets. webTDat uses an advanced rendering visualization method designed with an innovative data storage format and parallel rendering algorithms. webTDat loads the primary information in the image first and then decides whether it needs to load the secondary information in the image. By performing validation on TB-scale whole-brain datasets, webTDat achieves real-time performance during web visualization. The webTDat framework also provides a rich interface for annotation, making it a useful tool for visualizing mesoscopic whole-brain imaging data.
format Online
Article
Text
id pubmed-7838507
institution National Center for Biotechnology Information
language English
publishDate 2021
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-78385072021-01-28 webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images Li, Yuxin Li, Anan Li, Junhuai Zhou, Hongfang Cao, Ting Wang, Huaijun Wang, Kan Front Neuroinform Neuroscience The popularity of mesoscopic whole-brain imaging techniques has increased dramatically, but these techniques generate teravoxel-sized volumetric image data. Visualizing or interacting with these massive data is both necessary and essential in the bioimage analysis pipeline; however, due to their size, researchers have difficulty using typical computers to process them. The existing solutions do not consider applying web visualization and three-dimensional (3D) volume rendering methods simultaneously to reduce the number of data copy operations and provide a better way to visualize 3D structures in bioimage data. Here, we propose webTDat, an open-source, web-based, real-time 3D visualization framework for mesoscopic-scale whole-brain imaging datasets. webTDat uses an advanced rendering visualization method designed with an innovative data storage format and parallel rendering algorithms. webTDat loads the primary information in the image first and then decides whether it needs to load the secondary information in the image. By performing validation on TB-scale whole-brain datasets, webTDat achieves real-time performance during web visualization. The webTDat framework also provides a rich interface for annotation, making it a useful tool for visualizing mesoscopic whole-brain imaging data. Frontiers Media S.A. 2021-01-13 /pmc/articles/PMC7838507/ /pubmed/33519408 http://dx.doi.org/10.3389/fninf.2020.542169 Text en Copyright © 2021 Li, Li, Li, Zhou, Cao, Wang and Wang. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Neuroscience
Li, Yuxin
Li, Anan
Li, Junhuai
Zhou, Hongfang
Cao, Ting
Wang, Huaijun
Wang, Kan
webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images
title webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images
title_full webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images
title_fullStr webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images
title_full_unstemmed webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images
title_short webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images
title_sort webtdat: a web-based, real-time, 3d visualization framework for mesoscopic whole-brain images
topic Neuroscience
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7838507/
https://www.ncbi.nlm.nih.gov/pubmed/33519408
http://dx.doi.org/10.3389/fninf.2020.542169
work_keys_str_mv AT liyuxin webtdatawebbasedrealtime3dvisualizationframeworkformesoscopicwholebrainimages
AT lianan webtdatawebbasedrealtime3dvisualizationframeworkformesoscopicwholebrainimages
AT lijunhuai webtdatawebbasedrealtime3dvisualizationframeworkformesoscopicwholebrainimages
AT zhouhongfang webtdatawebbasedrealtime3dvisualizationframeworkformesoscopicwholebrainimages
AT caoting webtdatawebbasedrealtime3dvisualizationframeworkformesoscopicwholebrainimages
AT wanghuaijun webtdatawebbasedrealtime3dvisualizationframeworkformesoscopicwholebrainimages
AT wangkan webtdatawebbasedrealtime3dvisualizationframeworkformesoscopicwholebrainimages