bioRxivBioinformaticsPreprint
A browser-based platform for storage, visualization, and analysis of large-scale 3D images in HPC environments
Logan A. WalkeriD, Wei Jie LeeiD, Bin DuaniD, Menelik Weatherspoon, Ye LiiD, Fred Y. SheniD, Mou-Chi Cheng, Xiaoman Niu, Jacob Eggerd, Bin Xie, Jimmy Hon Pong Cheng, Humphrey Xu, Xiao-Xiang Zhong, Hehai Jiang, Meng CuiiD, Yan YaniD, Dawen CaiiD
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.
- assay: imaging
- research focus: software / tool
- research focus: cell type annotation
- research focus: spatial domain detection
- approach: experimental assay
- Citations
- 1
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