hlaAASeqClass


    The definition of a class for HLA protein amino acid sequences.


Genetics

It is a software package for imputing HLA types using SNP data,
and relies on a training set of HLA and SNP genotypes. HIBAG can be used
by researchers with published parameter estimates instead of requiring
access to large training sample datasets. It combines the concepts of
attribute bagging, an ensemble classifier method, with haplotype inference
for SNPs and HLA types. Attribute bagging is a technique which improves
the accuracy and stability of classifier ensembles using bootstrap
aggregating and random variable selection.

Xiuwen Zheng

HIBAG

HLA Genotype Imputation with Attribute Bagging

hlaAASeqClass function

The definition of a class for HLA protein amino acid sequences.

Class of HLA Amino Acid Sequence Type

locus

pos.start

pos.end

value

the human genome reference, such like "hg19"

assembly

start.position

reference

sample.id

allele1

allele2

if applicable, a matrix of posterior probability,
        row -- sample, column -- position of amino acid

hlaAASeqClass: Class of HLA Amino Acid Sequence Type

Description

Arguments

Value

See Also