HIBAG is a state of the art software package for imputing HLA types using SNP data, and it uses the R statistical programming language. HIBAG is highly accurate, computationally tractable, and can be used by researchers with published parameter estimates (provided for subjects of European, Asian, Hispanic and African ancestries) 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 deduced using bootstrap aggregating and random subsets of variables.
Xiuwen Zheng (firstname.lastname@example.org) , Bruce Weir (email@example.com)
- Windows / MacOsX / Linux
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X. Zheng, J. Shen, C. Cox, J. Wakefield, M. Ehm, M. Nelson, B. Weir.
HIBAG – HLA Genotype Imputation with Attribute Bagging
Pharmacogenomics J. 2013 May 28. doi: 10.1038/tpj.2013.18.