genomes (version 2.16.0)

esearch: Entrez database search

Description

Search Entrez databases at NCBI

Usage

esearch(term, db = "pubmed", usehistory = "y", parse = TRUE, verbose=TRUE, showURL=FALSE, ...)

Arguments

term

Any valid combination of Entrez search terms or a vector of accessions

db

An Entrez database, default pubmed

usehistory

Save results to History server for subsequent calls

parse

If false, the XML output is returned

verbose

Print number of results found

showURL

Print url string

...

Other key-value pairs passed to esearch url string

Value

Ids if usehistory="n", or the raw XML output if parse=FALSE. The default EntrezHistory object may be passed directly to the other E-utilities.

Details

See einfo() for a list of valid Entrez database names and search fields. If usehistory="n", the default number of ids returned is 20 (set a retmax option to increase the default limit). If a vector of accessions are input, the terms are pasted together in a comma-separated list for searching by Primary Acession.

References

http://www.ncbi.nlm.nih.gov/books/NBK25499

Examples

## Not run: 
# # EntrezHistory object
# esearch("bioconductor[TITLE]", showURL=TRUE)
# # taxonomy IDs
# esearch("mouse", db="taxonomy", usehistory="n")
# esearch("AE017223 OR ACBJ00000000", db="nuccore")
# # comma-separated (or vector) to search Primary accessions
# esummary( esearch("AE017223,ACBJ00000000", db="nuccore"))
# ## End(Not run)