DOI: 10.18129/B9.bioc.HIBAG    

This is the development version of HIBAG; for the stable release version, see HIBAG.

HLA Genotype Imputation with Attribute Bagging

Bioconductor version: Development (3.8)

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.

Author: Xiuwen Zheng [aut, cre, cph], Bruce Weir [ctb, ths]

Maintainer: Xiuwen Zheng <zhengx at u.washington.edu>

Citation (from within R, enter citation("HIBAG")):


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if (!require("BiocManager"))
BiocManager::install("HIBAG", version = "devel")


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biocViews Genetics, Software, StatisticalMethod
Version 1.17.1
In Bioconductor since BioC 3.1 (R-3.2) (3.5 years)
License GPL-3
Depends R (>= 3.2.0)
Imports methods
Suggests parallel, knitr, gdsfmt(>= 1.2.2), SNPRelate(>= 1.1.6), ggplot2, reshape2
URL http://github.com/zhengxwen/HIBAG http://zhengxwen.github.io/HIBAG http://www.biostat.washington.edu/~bsweir/HIBAG/
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Source Package HIBAG_1.17.1.tar.gz
Windows Binary HIBAG_1.17.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) HIBAG_1.17.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/HIBAG
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Package Short Url http://bioconductor.org/packages/HIBAG/
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