Skip to main content
. Author manuscript; available in PMC: 2020 Sep 1.
Published in final edited form as: Hum Mutat. 2019 Jun 18;40(9):1455–1462. doi: 10.1002/humu.23784

Table 3.

Comparison of Pd, SNPs&GO, Pp and INPS on the CHEK2 challenge. Classification scoring indexes were computed setting pcase threshold to 0.75 for identifying pathogenic variants.

Method SEN SPE PPV NPV ACC MCC F1
Pd 0.52 0.69 0.73 0.47 0.59 0.21 0.61
SNPs&GO 0.71 0.85 0.88 0.65 0.76 0.54 0.79
Pp 0.19 0.77 0.57 0.37 0.41 −0.05 0.29
INPS 0.52 0.69 0.73 0.47 0.59 0.21 0.61