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MACH 1.0 is a Markov Chain based haplotyper that can resolve long haplotypes or infer missing genotypes in samples of unrelated individuals.
If you use MACH, mach2qtl or mach2dat, please cite:
Li Y, Willer CJ, Ding J, Scheet P and Abecasis GR (2010) MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes. Genet Epidemiol 34:816-834.
Li Y, Willer CJ, Sanna S and Abecasis GR (2009) Genotype Imputation. Annu Rev Genomics Hum Genet 10:387-406.