hlaAttrBagObj


    The class of a HIBAG object, which can be saved in the <code>.RData</code> file.


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

hlaAttrBagObj function

The class of a HIBAG object, which can be saved in the <code>.RData</code> file.

The class of HIBAG object

n.samp

the total number of candidate SNP predictors

n.snp

sample.id

snp.id

snp.position

a vector of characters with the format of
        ``A allele/B allele''

snp.allele

snp.allele.freq

hla.locus

hla.allele

hla.freq

the human genome reference, such like "hg19"

assembly

a list of all classifiers (described as follows)

classifiers

<code>platform</code> -- supported platform(s);
        <code>information</code> -- other information, like training sets, authors;
        <code>warning</code> -- any warning message

appendix

the number of copies of samples in a bootstrap sample

samp.num

haplos

<code>freq</code>  -- haplotype frequency

<code>haplo</code> -- a SNP haplotype, with an entry value 0 standing
        for B (ZERO A allele), 1 for A (ONE A allele)

snpidx

the out-of-bag accuracy of this classifier

hlaAttrBagObj: The class of HIBAG object

Description

Arguments

Value

See Also