Question

Get original format information from SRA metadata

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4.5 years ago

mariafirulevabio ▴ 40

Dear all,

Consider I want to get the original format for certain SRR (e.g., this one).

I have SRAmetadb.sqlite. What exactly should I do in this case?

Best wishes,

Maria

sra sradb metadata pysradb sqlite3 • 1.7k views

ADD COMMENT • link updated 10 weeks ago by predeus ★ 1.9k • written 4.5 years ago by mariafirulevabio ▴ 40

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What do you mean by "original format"?

ADD REPLY • link 4.5 years ago by ATpoint 81k

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I mean Data access -> Original format -> TenX in "Type" column, using my link.

ADD REPLY • link 4.5 years ago by mariafirulevabio ▴ 40

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If you mean fastq, then try to use SRA Toolkit.

ADD REPLY • link 4.5 years ago by shoujun.gu ▴ 350

score 0 · Answer 1 · 2024-02-10

It's been a long time, but for other user's benefit: basically, the manual way would be to go to "Data access" tab, and find the "Original format" links below.

https://trace.ncbi.nlm.nih.gov/Traces/index.html?view=run_browser&acc=SRR7536866&display=data-access

enter image description here

The link labelled as "worldwide" can be downloaded with regular tools (you can click on it, or wget/curl/rsync it etc)