Pairwise comparison of alignment results using CADBURE.
(a) GSNAP with SNP tolerance versus TopHat2. (b) GSNAP without SNP tolerance versus TopHat2. (c) GSNAP without SNP tolerance versus GSNAP with SNP tolerance. (a–c) show the comparison of the percentage of TP, FP and TN for each dataset (E1, E2, E3, F1, F2, F3), where E stands for mouse lens epithelial cells, F for mouse lens fiber cells and the number indicates the biological replicate number. An asterisk at the end of each sample comparison indicates the difference of both specificity and accuracy between the aligners is significant at 5% level with 95% confidence. GSNAP SNP tol: GSNAP with SNP tolerance.