fastq-dump a whole "SRP" project?

bionode / bionode-sra

Node.js wrapper for SRA Toolkit

bionode.io

MIT License

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fastq-dump a whole "SRP" project? #2

Closed olgabot closed 9 years ago

olgabot commented 10 years ago

Is it possible to use bionode-sra to fastq-dump a whole project? For example, SRP027537 (aka GSE48968) has approximately 2500 samples and it would be amazing if it was possible to do:

fastq-dump SRP027537

And get all the fastq and metadata files.

bmpvieira commented 9 years ago

I believe this was answered by email and we forgot to close this. The answer was yes, with: bionode-ncbi download sra SRP027537 | bionode-sra fastq-dump -