| agPMID {ag.db} | R Documentation |
agPMID is an R object that provides mappings between manufacturer identifiers and PubMed identifiers.
Each manufacturer identifier is mapped to a named vector of PubMed identifiers. The
name associated with each vector corresponds to the manufacturer
identifier. The length of the vector may be one or greater, depending on how
many PubMed identifiers a given manufacturer identifier is mapped to. An NA is
reported for any manufacturer identifier that cannot be mapped to a PubMed identifier.
Titles, abstracts, and possibly full texts of articles can be obtained from PubMed by providing a valid PubMed identifier. The pubmed function of annotate can also be used for the same purpose.
Mappings were based on data provided by: Tair ( ftp://ftp.arabidopsis.org/User_Requests/LocusPublished.08022007.txt ) on 2007-Aug2
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed
x <- agPMID
# Get the probe identifiers that are mapped to any PubMed ID
mapped_probes <- mappedkeys(x)
# Convert to a list
xx <- as.list(x[mapped_probes])
if(length(xx) > 0){
# The probe identifiers for the first two elements of XX
xx[1:2]
# Get the first one
xx[[1]]
if(interactive() && !is.null(xx[[1]]) && !is.na(xx[[1]])
&& require(annotate)){
# Gets article information as XML files
xmls <- pubmed(xx[[1]], disp = "data")
# Views article information using a browser
pubmed(xx[[1]], disp = "browser")
}
}