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reutils (version 0.1.0)

Talk to the NCBI EUtils

Description

reutils provides support for interacting with NCBI databases such as PubMed, Genbank, or GEO via the Entrez Programming Utilities (EUtils). The nine EUtils provide a programmatical interface to the NCBI Entrez query and database system for searching and retrieving biological data.

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Install

install.packages('reutils')

Monthly Downloads

123

Version

0.1.0

License

MIT + file LICENSE

Issues

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Repository

https://github.com/gschofl/reutils/

Maintainer

Gerhard Schoefl

Last Published

November 29th, 2013

Functions in reutils (0.1.0)

elink - finding related data through Entrez links

Generator object for the eutil_error class

espell - retrieving spelling suggestions

Extract a node set from an XML document

ELink Accessors

esearch - searching an Entrez database

Generator object for the eutil classes

EInfo accessors

eutil_error-class

Class "eutil_error"

einfo - getting database statistics and search fields

Extract the content of XML leaf nodes

entrez_uid-class

Class "entrez_uid"

ncbi_retrieval_type

Set the NCBI rettype

An interface to the NCBI Entrez programming Utilities.

entrez_linkset-class

Class "entrez_linkset"

Extract the tag name of XML nodes

Extract the data content from an Entrez request

Extract the attributes of XML nodes

EFetch accessors

epost - uploading UIDs to Entrez

ESummary accessors

ESearch Accessors

esummary - downloading Document Summaries

Flatten nested lists

"eutil" classes

egquery - performing a global Entrez search

ecitmatch - searching PubMed with citation data

efetch - downloading full records