EUtilsGet: Results of an NCBI EUtils query

In skoval/RISmed: Download Content from NCBI Databases

Description

Download results of a query for any database of the National Center for Biotechnology Information (NCBI).

Usage

EUtilsGet(x,type="efetch",db="pubmed")

Arguments

x	Either vector of NCBI records ids, i.e. returned ids from EUtilsSummary, or the EUtilsSummary object itself
type	string indicating type of NCBI Eutility, efetch, esummary, etc.
db	string indicating the NCBI database used in query

Details

Possible E-utilities to supply to type are efetch, esummary, and elink.

The database name supplied to db can be any valid Entrez database, such as pubmed, protein, nlm, etc.

For further details on available E-utilities and databases visit https://www.ncbi.nlm.nih.gov/books/NBK25499/.

Note on usage:

In order not to overload the E-utility servers, NCBI recommends that users post no more than three URL requests per second and limit large jobs to either weekends or between 9:00 PM and 5:00 AM Eastern time during weekdays. Failure to comply with this policy may result in an IP address being blocked from accessing NCBI.

Value

For queries to PubMed, a list by article, with named vectors for each field of the article result.

For all other database, a list of the XML tree strucure used where XML output is available in E-Utils.

Author(s)

Stephanie Kovalchik [e-mail]

References

Summary help:

https://www.ncbi.nlm.nih.gov/books/NBK3827/

MEDLINE/PubMed Field Descriptions

https://www.nlm.nih.gov/bsd/mms/medlineelements.html

See Also

EUtilsSummary

skoval/RISmed documentation built on Oct. 6, 2021, 2:11 p.m.