Check HLA allele format — checkAlleleFormat • midasHLA

checkAlleleFormat test if the input character follows HLA nomenclature specifications.

checkAlleleFormat(allele)

Arguments

allele: Character vector with HLA allele numbers.

Value

Logical vector specifying if allele elements follows HLA alleles naming conventions.

Details

Correct HLA number should consist of HLA gene name followed by "*" and sets of digits separated with ":". Maximum number of sets of digits is 4 which is termed 8-digit resolution. Optionally HLA numbers can be supplemented with additional suffix indicating its expression status. See http://hla.alleles.org/nomenclature/naming.html for more details.

HLA alleles with identical sequences across exons encoding the peptide binding domains might be designated with G group allele numbers. Those numbers have additional G or GG suffix. See http://hla.alleles.org/alleles/g_groups.html for more details. They are interpreted as valid HLA alleles designations.

Examples

allele <- c("A*01:01", "A*01:02")
checkAlleleFormat(allele)
#> [1] TRUE TRUE