Question: NCBI API for finding accession numbers?
1
gravatar for mills.wj
6.0 years ago by
mills.wj10
United States
mills.wj10 wrote:

Hi all,

Is there an API somewhere for fetching lists of accession numbers from NCBI that match some search criteria? 

Context: I'd like to use their SRA Toolkit's 'prefetch' functionality (http://www.ncbi.nlm.nih.gov/books/NBK47540/#SRA_Download_Guid_B.The_SRA_Toolkit) to grab a bunch of sra files as part of a larger automated pipeline, but I don't want to have to cut and paste accession numbers one by one from a web-based search.

ncbi • 2.0k views
ADD COMMENTlink modified 6.0 years ago by 5heikki8.9k • written 6.0 years ago by mills.wj10
2
gravatar for 5heikki
6.0 years ago by
5heikki8.9k
Finland
5heikki8.9k wrote:

You mean like Entrez Direct or the less user friendly eUtils?

ADD COMMENTlink written 6.0 years ago by 5heikki8.9k

Great, I'll look into those - thanks for the pointer!

ADD REPLYlink written 6.0 years ago by mills.wj10

These are not APIs. It seems that there isn't anything that looks like API unfortunately.

ADD REPLYlink written 22 months ago by chefarov130
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1749 users visited in the last hour