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\name{pubmed}
\alias{pubmed}
\title{A function to open the browser to Pubmed with the selected gene. }
\description{
Given a vector of Pubmed identifiers or accession numbers, the user
can either have a browser display a URL showing a Pubmed query for
those identifiers, or a XMLdoc object with the same data.
}
\usage{
pubmed(...,disp=c("data","browser"), type=c("uid","accession"),
pmaddress=.efetch("PubMed", disp, type))
}
\arguments{
\item{...}{Vectorized set of Pubmed ID's}
\item{disp}{Either "Data" or "Browser" (default is data). Data
returns a XMLDoc, while Browser will display information in the
user's browser.}
\item{type}{Denotes whether the arguments are accession numbers or
UIDS. Defaults to uids.}
\item{pmaddress}{Specific path to the pubmed efetch engine from the
NCBI website.}
}
\details{
A simple function to retrieve Pubmed data given a specific ID, either
through XML or through a web browser. This function will accept
either pubmed accession numbers or NCBI UIDs (defined as a Pubmed
ID or a Medline ID) - although the types must not be mixed in a single
call.
WARNING: The powers that be at NCBI have been known to ban the IP
addresses of users who abuse their servers (currently defined as
less then 2 seconds between queries). Do NOT put this function in
a tight loop or you may find your access revoked.
}
\value{
If the option "data" is used, an object of type XMLDoc is returned,
unless there was an error with the query in which case an object of
type try-error is returned.
If the option "browser" is used, nothing is returned.
}
\author{R. Gentleman }
\seealso{\code{\link{genbank}}, \code{\link[XML]{xmlTreeParse}}}
\examples{
if( interactive() )
opts <- c("data","browser") else
opts <- "data"
for (dp in opts)
pubmed("11780146","11886385","11884611",disp=dp)
}
\keyword{ interface }
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