hlaCombineAllele: Combine two datasets of HLA types

In HIBAG: HIBAG -- HLA Genotype Imputation with Attribute Bagging

Description

Get a subset of HLA types from an object of hlaAlleleClass.

Usage

hlaCombineAllele(H1, H2)

Arguments

H1	the first hlaAlleleClass object
H2	the second hlaAlleleClass object

Value

Return hlaAlleleClass.

Author(s)

Xiuwen Zheng

See Also

hlaAllele, hlaAlleleSubset

Examples

# load HLA types and SNP genotypes
data(HLA_Type_Table, package="HIBAG")

head(HLA_Type_Table)
dim(HLA_Type_Table)  # 60 13

# make a "hlaAlleleClass" object
hla.id <- "C"
hla <- hlaAllele(HLA_Type_Table$sample.id, HLA_Type_Table[, paste(hla.id, ".1", sep="")],
	HLA_Type_Table[, paste(hla.id, ".2", sep="")], locus=hla.id, assembly="hg19")
summary(hla)

subhla1 <- hlaAlleleSubset(hla,   1:100)
summary(subhla1)
subhla2 <- hlaAlleleSubset(hla, 201:300)
summary(subhla2)

H <- hlaCombineAllele(subhla1, subhla2)
summary(H)

HIBAG documentation built on May 2, 2019, 4:50 p.m.