A tool for genotype imputation. The GeneImp algorithm uses a sliding window approach and does not require pre-phasing. Furthermore, the algorithm imputes genotypes to a dense reference panel by obtaining the likelihoods from ultralow sequencing coverage. Requirements: VCFtools, bcftools, and HTSlib.
Population genetics
Spiliopoulou A, Colombo M, Orchard P, Agakov F, McKeigue P "GeneImp: Fast Imputation to Large Reference Panels Using Genotype Likelihoods from Ultralow Coverage Sequencing." Genetics. 2017 May;206(1):91-104. 27. https://doi.org/10.1534/genetics.117.200063
PMID: 28348060
PMCID: PMC5419496
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