Kinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Sydney, New South Wales, Australia.
School of Computer Science and Engineering, University of New South Wales, Sydney, New South Wales, Australia.
Nat Biotechnol. 2022 Jul;40(7):1026-1029. doi: 10.1038/s41587-021-01147-4. Epub 2022 Jan 3.
Nanopore sequencing depends on the FAST5 file format, which does not allow efficient parallel analysis. Here we introduce SLOW5, an alternative format engineered for efficient parallelization and acceleration of nanopore data analysis. Using the example of DNA methylation profiling of a human genome, analysis runtime is reduced from more than two weeks to approximately 10.5 h on a typical high-performance computer. SLOW5 is approximately 25% smaller than FAST5 and delivers consistent improvements on different computer architectures.
纳米孔测序依赖于 FAST5 文件格式，该格式不允许高效的并行分析。在这里，我们介绍了 SLOW5，这是一种专为高效并行化和加速纳米孔数据分析而设计的替代格式。以人类基因组 DNA 甲基化分析为例，分析运行时间从两周多缩短到了大约 10.5 小时，这是在典型的高性能计算机上实现的。SLOW5 比 FAST5 小约 25%，并且在不同的计算机体系结构上都能持续改进。
