Table 2

Prediction performance of ExAlt. Sensitivity (Sens) and Specificity (Spec) are shown for exons.

Constitutive
 Cassete
 Multiple Splice
 Intron Retention
 All Exons

Sens
 Spec
 Sens
 Spec
 Sens
 Spec
 Sens
 Spec
 Sens
 Spec
ExAlt-Exon
 100
 96
 100
 89
 67
 94
 61
 89
 84
 94
N-SCAN-Exon Union
 100
 86
 100
 89
 65
 79
 55
 78
 82
 84
Augustus-Exon Union
 100
 82
 100
 81
 63
 77
 52
 73
 81
 79
SNAP-Exon Union
 100
 77
 100
 79
 64
 74
 51
 76
 81
 77
SNAP+N-SCAN-Exon Union
 100
 73
 100
 74
 69
 68
 57
 70
 83
 72
Augustus+N-SCAN-Exon Union
 100
 79
 100
 77
 68
 73
 57
 68
 83
 76
Aug.+SNAP+N-SCAN-Exon Union
 100
 70
 100
 69
 71
 64
 60
 64
 84
 67

Columns are organized by exon type: Constitutive, Cassette, Multiple Splice, Intron Retention, and all exons counted together (All Exons). Row 1 shows ExAlt performance using an input exon and default parameter settings (ExAlt-Exon). Rows 2–6 show the union of different combinations of three gene finders (N-SCAN, SNAP, and Augustus) plus the input exon. (Aug. = Augustus)

Allen and Salzberg Algorithms for Molecular Biology 2006 1:14   doi:10.1186/1748-7188-1-14