CloudASM：一种超高效的基于云的等位基因特异性 DNA 甲基化图谱绘制管道。
CloudASM: an ultra-efficient cloud-based pipeline for mapping allele-specific DNA methylation.
机构信息
Hackensack-Meridian Health Center for Discovery and Innovation, Nutley, NJ 07110, USA.
Hackensack-Meridian Health School of Medicine at Seton Hall University, Nutley, NJ 07110, USA.
出版信息
Bioinformatics. 2020 Jun 1;36(11):3558-3560. doi: 10.1093/bioinformatics/btaa149.
SUMMARY
Methods for quantifying the imbalance in CpG methylation between alleles genome-wide have been described but their algorithmic time complexity is quadratic and their practical use requires painstaking attention to infrastructure choice, implementation and execution. To solve this problem, we developed CloudASM, a scalable, ultra-efficient, turn-key, portable pipeline on Google Cloud Platform (GCP) that uses a novel pipeline manager and GCP's serverless enterprise data warehouse.
AVAILABILITY AND IMPLEMENTATION
CloudASM is freely available in the GitHub repository https://github.com/TyckoLab/CloudASM and a sample dataset and its results are also freely available at https://console.cloud.google.com/storage/browser/cloudasm.
CONTACT
摘要
已经描述了用于量化全基因组等位基因之间 CpG 甲基化失衡的方法，但它们的算法时间复杂度为二次方，并且它们的实际使用需要精心注意基础设施选择、实现和执行。为了解决这个问题，我们开发了 CloudASM，这是一个可扩展、超高效、即插即用的、可移植的 Google Cloud Platform（GCP）管道，它使用了一种新的管道管理器和 GCP 的无服务器企业数据仓库。
可用性和实现
CloudASM 可在 GitHub 存储库 https://github.com/TyckoLab/CloudASM 中免费获得，其示例数据集及其结果也可在 https://console.cloud.google.com/storage/browser/cloudasm 上免费获得。
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