Description Value Author(s) See Also
The class of SNP genotypes, and its instance is returned from
hlaMakeSNPGeno
.
There are five components:
genotype |
a genotype matrix, “# of SNPs”-by-“# of individuals”; 0 standing for BB (ZERO A allele), 1 for AB (ONE A allele), 2 for AA (TWO A alleles) and others for missing values (missing genotypes are usually set to be NA) |
sample.id |
a vector of sample IDs |
snp.id |
a vector of SNP IDs |
snp.position |
a vector of SNP positions in basepair |
snp.allele |
a vector of characters with a format of “A allele/B allele” |
assembly |
the human genome reference, such like "hg19" |
Xiuwen Zheng
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