search

ropensci / rentrez

talk with NCBI entrez using R
https://docs.ropensci.org/rentrez
Other
195 stars 38 forks source link

use with a local copy of PubMed #130

Closed sbalci closed 5 years ago

sbalci commented 5 years ago

Thank you for this package.

Is it possible to use it with a local copy of PubMed?

By a local copy I mean as described here: https://dataguide.nlm.nih.gov/edirect/archive.html

Thank you and Best wishes

dwinter commented 5 years ago

Hi sbalci,

At the moment, rentrez only works with the web api. It might be possible to us to develop a package that duplicates the edirect archive in the future, but it would like be some in addition to rentrez.

I'm closing the issue, but feel free to reply

sbalci commented 5 years ago

Thank you. I already have a local copy. I just want to use R interface and if possible your package to access my local copy like: entrez_search(db="MyLocalCopy", term="myQuery")

Best wishes

dwinter commented 5 years ago

Sadly, rentrez just won't be able to do that. It is written to take advantage of the webserver-based access to the databases, as I understand it, the locally stored database can't be accessed in the same way.