Question

Download UniProt databases via HTTP/HTTPS instead of FTP? (Google Apps Scripts Question)

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7.3 years ago

parism9 ▴ 30

Hello, Does anyone know of a mirror to download the UniRef90 database via HTTP or HTTPS, or something supported by Google Apps Scripts? I want to download the UniRef90 database, but it is not possible via FTP on Googgle Apps Scripts. Source. Thoughts?

UniProt Databases Google FTP sequence • 4.2k views

ADD COMMENT • link updated 3.3 years ago by me ▴ 760 • written 7.3 years ago by parism9 ▴ 30

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You can find all UniRef data on the UniProt website

You should be able to mirror that using standard http and using the query syntax you can slice or dice it in whatever way you wany. e.g. to get UniRef 90 just add ?query=identity:0.9.

Download formats are XML, RDF (JSON-LD, XML, Turtle) or FASTA and the column options.

ADD REPLY • link 7.3 years ago by me ▴ 760

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I am moving this to a comment since it does not answer original question. It sounds to me like OP does not want to do this manually (even once) otherwise uploading/downloading the data would be simple.

ADD REPLY • link 7.3 years ago by GenoMax 147k

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I think it answers the question.

How can I download UniRef 90 over http ->use http://www.uniprot.org/uniref/?query=identity:0.9&format=xml

ADD REPLY • link 7.3 years ago by me ▴ 760

score 0 · Answer 1 · 2021-08-23

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3.3 years ago

me ▴ 760

The uniprot "ftp" site is now also available via https

ADD COMMENT • link 3.3 years ago by me ▴ 760