PlantImpute is a tool for genotype imputation. The PlantImpute algorithm uses a hidden Markov model (HMM) to track inheritance specifically in plants. The tool is available from Carl Nettelblad by email. See 'contact'.
John M. Hickey, Gregor Gorjanc, Rajeev K. Varshney, and Carl Nettelblad "Imputation of Single Nucleotide Polymorphism Genotypes in Biparental, Backcross, and Topcross Populations with a Hidden Markov Model" cropscience, vol. 55, september–october 2015. https://doi.org/10.2135/cropsci2014.09.0648
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