Filter proteins with known interactions from STRINGdb R package

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Abhishek • 0

@e3a7a4dc

Last seen 4 months ago

Australia

I'm using the STRINGdb R package to obtain protein interaction information. Is there a way to only fetch interactions only from specific channels (eg : curated databases, experimentally determined) ?

For example, the network shown for FAA1 in string is : FAA1 network. Using STRINGdb R package, I'd like to get only the list of protein pairs with either light blue or pink edges.

I was unable to spot a function to fetch this channel type information.

Thanks in advance.

STRINGdb • 1.0k views

ADD COMMENT • link 2.1 years ago • updated 2.0 years ago Abhishek • 0

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Dear Abhishek,

R-package doesn't have access to the subscores. You can use API to access to retrieve these.

Best, Damian.

ADD REPLY • link 2.1 years ago damian.szk ▴ 80

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Thanks Damian. I ended up downloading the proteins.links.full file directly from the downloads section in StringDb website

ADD REPLY • link 2.0 years ago Abhishek • 0

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