homologene_uniprot_orthology: Orthology table with UniProt IDs

In saezlab/OmnipathR: OmniPath web service client and more

Orthology table with UniProt IDs

Description

Orthologous pairs of UniProt IDs for a pair of organisms, based on NCBI HomoloGene data.

Usage

homologene_uniprot_orthology(target = 10090L, source = 9606L, by = entrez, ...)

Arguments

target	Character or integer: name or ID of the target organism.
source	Character or integer: name or ID of the source organism.
by	Symbol or character: the identifier type in NCBI HomoloGene to use. Possible values are "refseqp", "entrez", "genesymbol", "gi".
...	Further arguments passed to translate_ids.

Value

A data frame with orthologous pairs of UniProt IDs.

Examples

homologene_uniprot_orthology(by = genesymbol)
# # A tibble: 14,235 × 2
#    source target
#    <chr>  <chr>
#  1 P11310 P45952
#  2 P49748 P50544
#  3 P24752 Q8QZT1
#  4 Q04771 P37172
#  5 Q16586 P82350
# # . with 14,230 more rows

saezlab/OmnipathR documentation built on May 3, 2024, 5:32 a.m.