SHAPEIT

SHAPEIT (Segmented HAPlotype Estimation and Imputation Tool) is a tool to estimate haplotypes. The SHAPEIT algorithm uses data from unrelated individuals or small families and scales linearly with he number of single-nucleotide polymorphisms (SNPs) and haplotypes.

Topic

Genotype and phenotype;Genotyping experiment

Detail

  • Operation: Imputation;Haplotype mapping

  • Software interface: Command-line user interface

  • Language: C++

  • License: Other

  • Cost: Free for non-commercial use

  • Version name: 2.12

  • Credit: Agence Nationale de Recherches sur le SIDA et les Hépatites, Centre de Recherches et d’investigations épidermiques et sensorielles, Medical Research Council,

  • Input: PED/MAP,BED/BIM/FAM

  • Output: HAPS/SAMPLE format

  • Contact: Prof. Zagury zagury@cnam.fr | Prof. Marchini marchini@stats.ox.ac.uk

  • Collection: -

  • Maturity: Stable

Publications

  • A linear complexity phasing method for thousands of genomes.
  • Delaneau O, et al. A linear complexity phasing method for thousands of genomes. A linear complexity phasing method for thousands of genomes. 2011; 9:179-81. doi: 10.1038/nmeth.1785
  • https://doi.org/10.1038/nmeth.1785
  • PMID: 22138821
  • PMC: -

Download and documentation

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