Table 2 Performance of LinkImpute and Beagle on different datasets
DatasetNumber of SNPsNumber of SamplesGenotype ErrorRun Time, sec
LinkImputeaBeagleLinkImputeaBeagle
Apple84047117.4%7.6%104424
Maize43,696430018.1%18.7%760816,585
Grape8506779.5%11.0%2816
  • SNP, single-nucleotide polymorphism.

  • a Using the LD-kNNi option and optimized values of k and l