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Nat Methods. 2011 Dec 4;9(2):179-81. doi: 10.1038/nmeth.1785.

A linear complexity phasing method for thousands of genomes.

Author information

1
Laboratoire Génomique, Bioinformatique, et Applications (Equipe d'accueil 4627), Conservatoire National des Arts et Métiers, Paris, France.

Abstract

Human-disease etiology can be better understood with phase information about diploid sequences. We present a method for estimating haplotypes, using genotype data from unrelated samples or small nuclear families, that leads to improved accuracy and speed compared to several widely used methods. The method, segmented haplotype estimation and imputation tool (SHAPEIT), scales linearly with the number of haplotypes used in each iteration and can be run efficiently on whole chromosomes.

PMID:
22138821
DOI:
10.1038/nmeth.1785
[Indexed for MEDLINE]

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