R package -- HLA Genotype Imputation with Attribute Bagging

View the Project on GitHub zhengxwen/HIBAG

HLA Genotype Imputation with Attribute Bagging

Kernel Version: v1.4

GPLv3 GNU General Public License, GPLv3

Availability Years-in-BioC Build Status Build status codecov.io


HIBAG is a state of the art software package for imputing HLA types using SNP data, and it 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.

Bioconductor Package

Release Version: http://www.bioconductor.org/packages/release/bioc/html/HIBAG.html

Development Version: http://www.bioconductor.org/packages/devel/bioc/html/HIBAG.html

Changes in Bioconductor Version (since v1.14.0):

Changes in Bioconductor Version (since v1.3.0):

Package Maintainer

Dr. Xiuwen Zheng (zhengx@u.washington.edu)

Pre-fit Model Download

platform-specific models: http://zhengxwen.github.io/HIBAG/platforms.html


Zheng, X. et al. HIBAG-HLA genotype imputation with attribute bagging. Pharmacogenomics Journal 14, 192–200 (2014). http://dx.doi.org/10.1038/tpj.2013.18