all_uniprots {OmnipathR}R Documentation

A table with all UniProt IDs

Description

Retrieves a table from UniProt with all proteins for a certain organism.

Usage

all_uniprots(fields = "id", reviewed = TRUE, organism = 9606)

Arguments

fields

Character vector of fields as defined by UniProt. For possible values please refer to https://www.uniprot.org/help/uniprotkb%5Fcolumn%5Fnames

reviewed

Retrieve only reviewed ('TRUE'), only unreviewed ('FALSE') or both ('NULL').

organism

Integer, NCBI Taxonomy ID of the organism (by default 9606 for human).

Value

Data frame (tibble) with the requested UniProt entries and fields.

Examples

human_swissprot_ac <- all_uniprots(fields = 'entry name')
human_swissprot_ac
# # A tibble: 20,396 x 1
#    `Entry name`
#    <chr>
#  1 OR4K3_HUMAN
#  2 O52A1_HUMAN
#  3 O2AG1_HUMAN
#  4 O10S1_HUMAN
#  5 O11G2_HUMAN
# # . with 20,386 more rows

[Package OmnipathR version 3.1.13 Index]