ncbiPubmed: NCBI PubMed database

In cstubben/genomes2: Genome sequencing project metadata

Description

Searches the PubMed database at NCBI and returns a short citation with author, year, title, journal and published date.

Usage

ncbiPubmed(term, abstract = FALSE)

Arguments

term	Any valid combination of Entrez search terms or a vector of pubmed IDs
abstract	Include abstract in result table, default FALSE

Details

The function searches the PubMed database and parses the efetch XML summary to return a short citation

Value

A data.frame with 9 or 10 columns

pmid	PubMed id
authors	first 3 author names
year	year journal was published
title	title
journal	journal name
volume	volume number
pages	pages
pubdate	date journal was published (from PubDate tag)
artdate	date electronic copy was available (from ArticleDate tag)
abstract	abstract

Author(s)

Chris Stubben

Examples

## Not run: 
ncbiPubmed( c(7542800, 7569993))
# OR ncbiPubmed("7542800,7569993")

## End(Not run)

cstubben/genomes2 documentation built on May 14, 2019, 12:25 p.m.