validate_uniprot_ids_with_uniprot: Validate UniProt IDs

In MoTrPAC/MotrpacBicQC: QC/QA functions for the MoTrPAC community

Validate UniProt IDs

Description

This function checks if a given vector of IDs are valid UniProt IDs. It removes NA values, empty strings, and white spaces before validation. Each remaining ID is then checked against the UniProt database. The function outputs a boolean value indicating whether all IDs are valid. It also prints messages for any ID that fails the validation.

Usage

validate_uniprot_ids_with_uniprot(ids)

Arguments

ids	A character vector of potential UniProt IDs.

Value

A boolean value. TRUE if all non-NA, non-empty, and non-whitespace IDs in the input vector are valid UniProt IDs; FALSE otherwise.

Note

This function requires an internet connection to access the UniProt database. It uses the 'httr' package for HTTP requests. The function can be slow for large datasets due to multiple web requests. Also, be aware of potential rate limits or access restrictions on the UniProt API.

Examples

# VALID
ids1 <- c("P12345", "Q67890", NA, "", " ")
if(validate_uniprot_ids_with_uniprot(ids1)) print("Valid UNIPROT IDs")
ids2 <- c("P12345", "Q67890", NA, "", " ", "iamwrong")
if(!validate_uniprot_ids_with_uniprot(ids1)) print("Invalid UNIPROT IDs")

MoTrPAC/MotrpacBicQC documentation built on Sept. 26, 2024, 11:10 a.m.