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. 2012 Mar 13;40(13):5848–5863. doi: 10.1093/nar/gks209

Table 1.

SVM kernel evaluation

Metric Kernel
Linear Polynomial (d = 2) Polynomial (d = 3) RBF Sigmoid
Sensitivity 0.80 ± 0.05 0.80 ± 0.05 0.82 ± 0.03 0.60 ± 0.05 0.00 ± 0.00
Specificity 0.91 ± 0.01 0.96 ± 0.01 0.96 ± 0.01 0.99 ± 0.02 0.84 ± 0.03

Sensitivity = TP/(TP + FN); Specificity = TN/(TN + FP),

where TP, TN, FP, FN correspond to true positive, true negative, false positive and false negative, respectively. We performed three independent runs of 10-fold cross validation on the training collection and reported the average sensitivity/specificity and the standard deviation. The kernel with the best performance in both sensitivity and specificity is highlighted in bold. This is also the kernel we used throughout our analyses.