Skip to main content

Table 1 Pairwise concordance between genotyping methods

From: Discovery of novel variants in genotyping arrays improves genotype retention and reduces ascertainment bias

  Alchemy
MouseDivGeno AA AB BB N
AA 127,867,623 1,920,909 25,627 1,026,558
AB 769,150 16,433,765 635,019 1,116,810
BB 3,425 1,257,523 29,282,297 560,353
NN 931,375 1,458,539 277,201 400,965
V 132,229 76,720 63,696 513,629
  BRLMM-P 2D
MouseDivGeno AA AB BB N
AA 129,030,882 824,258 20,829 964,748
AB 1,089,922 17,190,764 335,325 338,733
BB 27,880 1,628,799 29,044,569 402,350
NN 1,037,029 1,469,896 258,170 302,985
V 104,122 361,969 52,523 267,660
  BRLMM-P 2D
Alchemy AA AB BB N
AA 128,281,002 675,020 16,046 731,734
AB 1,865,751 18,131,854 388,169 761,682
BB 60,277 987,808 28,913,772 321,983
NN 1,082,805 1,681,004 393,429 461,077