README.md

In sckott/egnar: European Nucleotide Archive Client

egnar

European Nucleotide Archive

European Nucleotide Archive API docs

• data retrieval
• search

Install

Development version

devtools::install_github("sckott/egnar")

library("egnar")

search

en_search(query = '"geo_circ(-0.587,-90.5713,170)"', result = 'sequence_release')

## {xml_document}
## <ROOT>
##  [1] <entry accession="AM944843" version="1" entryVersion="2" dataClass= ...
##  [2] <entry accession="AM944844" version="1" entryVersion="2" dataClass= ...
##  [3] <entry accession="AM944845" version="1" entryVersion="2" dataClass= ...
##  [4] <entry accession="AM944846" version="1" entryVersion="2" dataClass= ...
##  [5] <entry accession="AM944847" version="1" entryVersion="2" dataClass= ...
##  [6] <entry accession="AM944848" version="1" entryVersion="2" dataClass= ...
##  [7] <entry accession="AM944849" version="1" entryVersion="2" dataClass= ...
##  [8] <entry accession="AM944850" version="1" entryVersion="2" dataClass= ...
##  [9] <entry accession="AM944851" version="1" entryVersion="2" dataClass= ...
## [10] <entry accession="AM944852" version="1" entryVersion="2" dataClass= ...
## [11] <entry accession="AM944853" version="1" entryVersion="2" dataClass= ...
## [12] <entry accession="AM944854" version="1" entryVersion="2" dataClass= ...
## [13] <entry accession="AM944855" version="1" entryVersion="2" dataClass= ...
## [14] <entry accession="AM944856" version="1" entryVersion="2" dataClass= ...
## [15] <entry accession="AM944857" version="1" entryVersion="2" dataClass= ...
## [16] <entry accession="AM944858" version="1" entryVersion="2" dataClass= ...
## [17] <entry accession="AM944859" version="1" entryVersion="2" dataClass= ...
## [18] <entry accession="AM944860" version="1" entryVersion="2" dataClass= ...
## [19] <entry accession="AM944861" version="1" entryVersion="2" dataClass= ...
## [20] <entry accession="AM944862" version="1" entryVersion="2" dataClass= ...
## ...

fetch data

en_fetch(id = c('Taxon:4235', 'Taxon:6543'))

## {xml_document}
## <ROOT>
## [1] <taxon scientificName="Lactuca" taxId="4235" parentTaxId="745062" ra ...
## [2] <taxon scientificName="Arion rufus" taxId="6543" parentTaxId="6542"  ...

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sckott/egnar documentation built on May 29, 2019, 3:59 p.m.