fetch_in_chunks: Downloads abstracts and Metadata from Pubmed, storing as R...

In rpubmed: rpubmed

Description

Downloads abstracts and Metadata from Pubmed, storing as R objects Splits large id vectors into a list of smaller chunks, so as not to hammer the entrez server! If you are making large bulk downloads, consider setting a delay so the downloading starts at off-peak USA times.

Usage

  fetch_in_chunks(ids, chunk_size = 500, delay = 0, ...)

Arguments

ids	integer Pubmed ID's to get abstracts and metadata from
chunk_size	Number of articles to be pulled with each call to pubmed_fetch (optional)
delay	Integer Number of hours to wait before downloading starts
...	character Additional terms to add to the request

Value

list containing abstratcs and metadata for each ID

Examples

## Not run: 
 # Get IDs via rentrez_search:
 plasticity_ids <- entrez_search("pubmed", "phenotypic plasticity", retmax = 2600)$ids
 plasticity_records <- fetch_in_chunks(plasticity_ids)

## End(Not run)

rpubmed documentation built on May 2, 2019, 5:25 p.m.