grabseqs: simple downloading of reads and metadata from multiple next-generation sequencing data repositories | Zendy

Louis J. Taylor | Zendy; Arwa Abbas | Zendy; Frederic D. Bushman | Zendy

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grabseqs: simple downloading of reads and metadata from multiple next-generation sequencing data repositories

Author(s) -

Louis J. Taylor,

Arwa Abbas,

Frederic D. Bushman

Publication year - 2020

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btaa167

Subject(s) - metadata , computer science , python (programming language) , upload , download , mit license , source code , annotation , database , metagenomics , software , world wide web , file format , operating system , biology , biochemistry , artificial intelligence , gene

High-throughput sequencing is a powerful technique for addressing biological questions. Grabseqs streamlines access to publicly available metagenomic data by providing a single, easy-to-use interface to download data and metadata from multiple repositories, including the Sequence Read Archive, the Metagenomics Rapid Annotation through Subsystems Technology server and iMicrobe. Users can download data and metadata in a standardized format from any number of samples or projects from a given repository with a single grabseqs command.

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