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IDseq—An open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoring
GigaScience ( IF 9.2 ) Pub Date : 2020-10-15 , DOI: 10.1093/gigascience/giaa111
Katrina L Kalantar 1 , Tiago Carvalho 1 , Charles F A de Bourcy 1 , Boris Dimitrov 1 , Greg Dingle 1 , Rebecca Egger 1 , Julie Han 1 , Olivia B Holmes 1 , Yun-Fang Juan 1 , Ryan King 1 , Andrey Kislyuk 1 , Michael F Lin 1 , Maria Mariano 1 , Todd Morse 1 , Lucia V Reynoso 1 , David Rissato Cruz 1 , Jonathan Sheu 1 , Jennifer Tang 1 , James Wang 1 , Mark A Zhang 1 , Emily Zhong 1 , Vida Ahyong 2 , Sreyngim Lay 3 , Sophana Chea 3 , Jennifer A Bohl 3 , Jessica E Manning 3 , Cristina M Tato 2 , Joseph L DeRisi 2
Affiliation  

Metagenomic next-generation sequencing (mNGS) has enabled the rapid, unbiased detection and identification of microbes without pathogen-specific reagents, culturing, or a priori knowledge of the microbial landscape. mNGS data analysis requires a series of computationally intensive processing steps to accurately determine the microbial composition of a sample. Existing mNGS data analysis tools typically require bioinformatics expertise and access to local server-class hardware resources. For many research laboratories, this presents an obstacle, especially in resource-limited environments.

中文翻译:

IDseq——一种基于云的开源管道和分析服务,用于宏基因组病原体检测和监测

宏基因组下一代测序 (mNGS) 能够快速、公正地检测和鉴定微生物,无需病原体特异性试剂、培养或微生物景观的先验知识。mNGS 数据分析需要一系列计算密集型处理步骤来准确确定样品的微生物组成。现有的 mNGS 数据分析工具通常需要生物信息学专业知识和本地服务器级硬件资源的访问权限。对于许多研究实验室来说,这构成了一个障碍,特别是在资源有限的环境中。
更新日期:2020-10-15
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