| hla.hap.demo {pould} | R Documentation |
Example Six-Locus HLA Haplotype Data in GL String Format
Description
A data frame of experimentally phased genotype data for the HLA-A, -C, -B, -DRB1, -DQB1 and DQB1 loci. These haplotypes are for 419 unrelated European American control subjects included in a study of Multiple Sclerosis. These haplotypes were experimentally phased using the EM algorithm; low-frequency haplotypes (with counts < 3) are assigned stochasically by the EM method, so the phase "quality" of these haplotypes should be considered lower than that for haplotypes determined via family segregation analysis.
Usage
data(hla.hap.demo)
Format
A data frame with 419 rows and two columns
Relation: the genotyped individual's status in a family
Gl String: GL String formatted multilocus phased HLA genotype
Note
This data is formatted as example input for the LDWrap() function, but is not actual family data. Actual family data would include 'mother', 'father' and 'child' in the "Relation" field. Nevertheless, including 'Subject' in this field is sufficient for analysis using LDWrap().
Source
immport.org study SDY1045 doi:10.21430/M3QW34U2SG
References
Published study: Mack et al. Genes Immun. 2019;20(4):308-326. doi: 10.1038/s41435-017-0006-8.
GL String format: Milius et al. Tissue Antigens. 2013;82(2):106-12. doi: 10.1111/tan.12150.