A browser-based platform for storage, visualization, and analysis of large-scale 3D images in HPC environments

Walker, L. A.; Lee, W. J.; Duan, B.; Weatherspoon, M.; Li, Y.; Shen, F. Y.; Cheng, M.-C.; Niu, X.; Eggerd, J.; Xie, B.; Cheng, J. H. P.; Xu, H.; Zhong, X.-X.; Jiang, H.; Cui, M.; Yan, Y.; Cai, D.

doi:10.1101/2024.10.04.616591

bioRxiv · 10.1101/2024.10.04.616591

A browser-based platform for storage, visualization, and analysis of large-scale 3D images in HPC environments

Walker, L. A.·Lee, W. J.·Duan, B.·Weatherspoon, M.·Li, Y.·Shen, F. Y.·Cheng, M.-C.·Niu, X.·Eggerd, J.·Xie, B.·Cheng, J. H. P.·Xu, H.·Zhong, X.-X.·Jiang, H.·Cui, M.·Yan, Y.·Cai, D.

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Abstract

High-throughput microscopy necessitates 3D image storage, visualization, and analysis in terabyte to petabyte scales. Centralized high-performance computing (HPC) infrastructure provides the resources, but interfacing software is limited. We developed an extensible platform with a scalable image storage format (SISF) and content delivery network (CDN) to enable fast, random access to compressed data. Additionally, we built a cloud-based nTracer2 software to annotate neuron morphology from SISF images in a web browser.

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Walker, L. A., Lee, W. J., Duan, B., Weatherspoon, M., Li, Y., Shen, F. Y., Cheng, M.-C., Niu, X., Eggerd, J., Xie, B., Cheng, J. H. P., Xu, H., Zhong, X.-X., Jiang, H., Cui, M., Yan, Y., Cai, D.. 2024-10-04. A browser-based platform for storage, visualization, and analysis of large-scale 3D images in HPC environments. https://doi.org/10.1101/2024.10.04.616591

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