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reutils (version 0.2.2)

Talk to the NCBI EUtils

Description

An interface to NCBI databases such as PubMed, GenBank, or GEO powered by the Entrez Programming Utilities (EUtils). The nine EUtils provide programmatic access to the NCBI Entrez query and database system for searching and retrieving biological data.

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Install

install.packages('reutils')

Monthly Downloads

545

Version

0.2.2

License

MIT + file LICENSE

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Repository

https://github.com/gschofl/reutils

Maintainer

Gerhard Schöfl

Last Published

October 26th, 2015

Functions in reutils (0.2.2)

content,ecitmatch-method

Extract the data content from an Entrez request

esummary - downloading Document Summaries

epost - uploading UIDs to Entrez

[,esearch,numeric,missing-method

ESearch Accessors

Extract the attributes of XML nodes

Extract the tag name of XML nodes

An interface to the NCBI Entrez programming Utilities.

eutil_error-class

Class "eutil_error":

[,elink,ANY,missing-method

ELink Accessors

Extract the content of XML leaf nodes

Class "eutil": Reference classes that hold the response from EUtils requests.

entrez_linkset-class

Class "entrez_linkset"

ecitmatch - searching PubMed with citation data

querykey,epost-method

webenv,epost-method

esearch - searching an Entrez database

ncbi_retrieval_type

Set the NCBI rettype

egquery - performing a global Entrez search

[,efetch,character,missing-method

EFetch accessors

database,entrez_linkset-method

espell - retrieving spelling suggestions

entrez_uid-class

Class "entrez_uid"

[,esummary,character,ANY-method

ESummary accessors

Extract a node set from an XML document

elink - finding related data through Entrez links

Flatten nested lists

uid,entrez_linkset-method

efetch - downloading full records

[,einfo,ANY,missing-method

EInfo accessors

einfo - getting database statistics and search fields