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Table 2 Comparison of performance measures (TP - True Positives, Sn - Sensitivity, Pr - Precision and Ac - Accuracy) between GeneMark, Glimmer, MetaGeneMark (MGM), FragGeneScan (FGS) and TransGeneScan (TGS).

From: Gene finding in metatranscriptomic sequences

Organisms   GeneMark Glimmer MGM FGS TGS
E. coli (2171) Predicted 2039 2169 1961 1941 2159
Completely TP 1805 1695 1642 1678 1889
Overlap Sn 83.14 78.07 75.63 77.29 87.01
  Pr 97.67 95.71 97.56 96.00 97.82
  Ac 89.82 86.00 85.21 85.63 92.10
80% TP 1996 2093 1920 1871 2117
Overlap Sn 91.94 96.41 88.44 86.18 97.51
  Pr 97.89 96.50 97.91 96.39 98.05
  Ac 94.82 96.45 92.93 91.00 97.78
P. marinus (621) Predicted 631 698 592 578 571
Completely TP 488 527 482 456 501
Overlap Sn 78.58 84.86 77.62 73.43 80.68
  Pr 83.85 83.52 88.93 85.23 95.98
  Ac 81.13 84.19 82.89 78.89 87.66
80% TP 537 595 532 499 550
Overlap Sn 86.47 95.81 85.67 80.35 88.57
  Pr 85.10 85.24 89.86 86.33 96.32
  Ac 85.78 90.22 87.72 83.24 92.28
R. sphaeroides (1184) Predicted 1078 1121 1024 1026 1165
Completely TP 899 891 897 879 1011
Overlap Sn 75.93 75.25 75.76 74.24 85.39
  Pr 98.04 97.38 98.36 97.88 97.87
  Ac 85.58 84.90 85.59 84.44 91.20
80% TP 1060 1097 1009 1007 1143
Overlap Sn 89.53 92.65 85.22 85.05 96.54
  Pr 98.33 97.86 98.54 98.15 98.11
  Ac 93.72 95.18 91.39 91.13 97.32
  1. The numbers of positive genes recovered in the assembled transcripts.