IDseq-An open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoring.

ABSTRACT:

Background

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.

Findings

We present IDseq, an open source cloud-based metagenomics pipeline and service for global pathogen detection and monitoring (https://idseq.net). The IDseq Portal accepts

SUBMITTER: Kalantar KL 

PROVIDER: S-EPMC7566497 | biostudies-literature | 2020 Oct

REPOSITORIES: biostudies-literature