pubMedAbst-class {annotate} | R Documentation

## Class pubMedAbst, a class to handle PubMed abstracts, and methods for processing them.

### Description

This is a class representation for PubMed abstracts.

### Creating Objects

`new('pubMedAbst',`
`authors = ...., # Object of class vector`
`pmid = ...., # Object of class character`
`abstText = ...., # Object of class character`
`articleTitle = ...., # object of class character`
`journal = ...., # Object of class character`
`pubDate = ...., # Object of class character`
`abstUrl = ...., # Object of class character`
`)`

### Slots

`pmid`:
  Object of class `"character"` The PubMed ID for this paper.
`authors`:
  Object of class `"vector"` The authors of the paper.
`abstText`:
  Object of class `"character"` The contained text of the abstract.
`articleTitle`:
  Object of class `"character"` The title of the article the abstract pertains to.
`journal`:
  Object of class `"character"` The journal the article was published in.
`pubDate`:
  Object of class `"character"` The date the journal was published.
`abstUrl`:
  Object of class `"character"` A URL, if one is provided, contained in the abstract.

### Methods

pmid
  `signature(object = "pmid")`: An accessor function for `pmid`
abstText
  `signature(object = "pubMedAbst")`: An accessor function for `abstText`
abstUrl
  `signature(object = "pubMedAbst")`: An accessor function for `abstUrl`
articleTitle
  `signature(object = "pubMedAbst")`: An accessor function for `articleTitle`
authors
  `signature(object = "pubMedAbst")`: An accessor function for `authors`
journal
  `signature(object = "pubMedAbst")`: An accessor function for `journal`
pubDate
  `signature(object = "pubMedAbst")`: An accessor function for `pubDate`

### Author(s)

Jeff Gentry

### See Also

`pubmed`, `genbank`

### Examples

       x <- pubmed("9695952","8325638","8422497")
       a <- xmlRoot(x)
       numAbst <- length(xmlChildren(a))
       absts <- list()
       for (i in 1:numAbst) {
          absts[[i]] <- buildPubMedAbst(a[[i]])
       }

[Package annotate version 1.12.1 Index]