getAccessions {geneHummus}

Get the acessions ids and the organism for each protein identifier

Description

The getAccessions function parses the protein page for each identifier and extracts the accession id (usually referred as XP accession in the RefSeq database) and the organism given by the scientific name.

The accessions_by_spp and accessions_from_spp functions are convenient filters for further cleaning of getAccessions by giving the total number of XP accessions per species or extracting the XP accessions for a given species, respectively.

Usage

getAccessions(protein_ids)

Arguments

protein_ids

A string vector containing protein identifiers.

Value

A data.frame of protein ids including columns:

• accession

• organism

Author(s)

Jose V. Die

See Also

accessions_by_spp to summarize the total number of accession proteins per species.

accessions_from_spp to filter the accession ids for a given species

Examples

prot_ids <- c("593705262", "1379669790", "357520645",  "1150156484")
getAccessions(prot_ids)