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arXiv 2307.08367q-bio.GN
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ProSt:计算、存储和可视化原核生物基因组的属性

ProSt: computing, storing and visualizing attributes of prokaryotic genomes

Giorgio Gonnella

AI总结:

本文提出 ProSt 系统,用于原核生物基因组属性的并行批量计算、增量存储、交互式可视化与溯源跟踪,并通过多语言插件支持灵活扩展。

摘要:

原核生物通常具有紧凑的基因组,这使其特别适合利用现有技术进行完整测序,从而导致可用基因组数据不断加速积累。为应对这一持续扩展的信息库,我们推出 ProSt,这是一个计算系统,旨在对原核生物基因组的属性值进行批量计算、存储和交互式可视化。该系统支持并行的属性值批量计算,并经过动态设计,可在更多基因组可用时增量整合新的属性值。ProSt 具有灵活性,允许通过实现属性值计算插件来定义属性,并支持多种语言(Python、Nim、Rust 和 Bash)。这使系统能够根据不断变化的研究需求和发展持续演进。此外,我们的计算和存储系统维护全面的元数据,从而能够对计算得到的属性值进行数据溯源跟踪。

英文摘要:

Prokaryotic organisms usually possess compact genomes, which are particularly suitable to complete sequencing with existing technologies, which led to an escalating accumulation of available genome data. In response to this ever-expanding repository of information, we introduce ProSt, a computational system designed for the batch computation, storage, and interactive visualization of the values of attributes of prokaryotic genomes. The system allows for parallel attribute value batch computation, dynamically designed to incrementally integrate new attribute values as additional genomes become available. ProSt is flexible permitting the definition of attributes by implementing attribute value computation plugins, supporting several languages (Python, Nim, Rust and Bash). This allows the system to continually evolve in accordance with changing research needs and developments. Additionally, our computation and storage systems maintain comprehensive metadata, thereby enabling data provenance tracking for the computed attribute values.

机构、总结、中文摘要均由AI分析而来,可能存在错误,请以论文正文为准。

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