esearch: Entrez database search
In cstubben/genomes2: Genome sequencing project metadata

Description Usage Arguments Details Value Author(s) References Examples

Search Entrez databases at NCBI

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

`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

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.

Either an EntrezHistory data.frame listing the database, query_key and WebEnv (default), a vector of 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.

Chris Stubben

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

## 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)