getUniProtInfo

Perform large scale genomic data retrieval and functional annotation retrieval. This package aims to provide users with a standardized
way to automate genome, proteome, 'RNA', coding sequence ('CDS'), 'GFF', and metagenome
retrieval from 'NCBI RefSeq', 'NCBI Genbank', 'ENSEMBL',
and 'UniProt' databases. Furthermore, an interface to the 'BioMart' database
(Smedley et al. (2009) <doi:10.1186/1471-2164-10-22>) allows users to retrieve
functional annotation for genomic loci. In addition, users can download entire databases such
as 'NCBI RefSeq' (Pruitt et al. (2007) <doi:10.1093/nar/gkl842>), 'NCBI nr',
'NCBI nt', 'NCBI Genbank' (Benson et al. (2013) <doi:10.1093/nar/gks1195>), etc. with only one command.

Hajk-Georg Drost

biomartr

Genomic Data Retrieval

Haakon Tjeldnes

getUniProtInfo function

<dl><dt>organism</dt>
<dd>character, name of organism</dd>
<dt>path</dt>
<dd>path at which the info file shall be stored locally.</dd>
<dt>update</dt>
<dd>shall the internal <code>cachedir</code> file be deleted and the info
file freshly downloaded from the UniProt API?</dd></dl>

Arguments

Get uniprot info from organism — getUniProtInfo

<dl>

<dt>organism</dt>
<dd>character, name of organism</dd>


<dt>path</dt>
<dd>path at which the info file shall be stored locally.</dd>


<dt>update</dt>
<dd>shall the internal <code>cachedir</code> file be deleted and the info
file freshly downloaded from the UniProt API?</dd>

</dl>

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getUniProtInfo: Get uniprot info from organism

Description

Usage

Arguments