immunogenetr (version 0.3.0)

HLA_match_summary_HCT: HLA_match_summary_HCT

Description

Calculates the match summary for either the HLA-A, B, C and DRB1 loci (out-of-8 matching) or the HLA-A, B, C, DRB1 and DQB1 loci (out-of-10 matching), as is commonly used for hematopoietic cell transplantation (HCT). Homozygous mismatches are counted twice. Bidirectional matching is the default, but can be overridden with the "direction" argument.

Usage

HLA_match_summary_HCT(
  GL_string_recip,
  GL_string_donor,
  direction = "bidirectional",
  match_grade
)

Value

An integer value of the match grade summary.

Arguments

GL_string_recip

A GL string representing the recipient's HLA genotype, and minimally containing the HLA-A, B, C and DRB1 loci (for Xof8 matching) or the HLA-A, B, C, DRB1 and DQB1 loci (for Xof10 matching).

GL_string_donor

A GL string representing the donor's HLA genotype, and minimally containing the HLA-A, B, C and DRB1 loci (for Xof8 matching) or the HLA-A, B, C, DRB1 and DQB1 loci (for Xof10 matching).

direction

"GvH", "HvG" or "bidirectional". Default is "bidirectional".

match_grade

"Xof8" for HLA-A, B, C and DRB1 matching or "Xof10" for HLA-A, B, C, DRB1 and DQB1 matching.

Examples

# Example recipient and donor GL strings
file <- HLA_typing_1[, -1]
GL_string <- HLA_columns_to_GLstring(file, HLA_typing_columns = everything())

GL_string_recip <- GL_string[1]
GL_string_donor <- GL_string[2]

# Calculate mismatch numbers
HLA_match_summary_HCT(GL_string_recip, GL_string_donor,
  direction = "bidirectional", match_grade = "Xof8"
)