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Table 5 Ranking of all 144 combinations of method, filtering, and sampling scheme (time, type) when drivers are unknown with respect to each performance measure

From: Identifying restrictions in the order of accumulation of mutations during tumor progression: effects of passengers, evolutionary models, and sampling

Method and sampling Conjunction   No conjunction
  Diff PFD PND FPF   Diff PFD PND FPF
S5, OT-A, last, singleC 1 7 15 60   1 13 13 60
S5, OT-A, last, wholeT_0.5 2 6 23 59   2 7 23 59
J5, OT-A, last, wholeT_0.01 3 1 26 71   4 2 29 74
S5, OT-A, last, wholeT_0.01 4 2 2 94   3 5 4 94
S5, OT-A, unif, wholeT_0.01 5 17 33 69   10 17 32.5 68.5
S5, OT, unif, singleC 6 41 61.5 28   9 38 55.5 20.5
S5, OT-A, unif, singleC 7 50 61.5 31   8 49 55.5 20.5
J1, OT-A, last, singleC 8 15 38 80   6 12 37 75
J1, OT-A, last, wholeT_0.5 9 10 39 79   7 6 39 71
S5, OT-A, unif, wholeT_0.5 10 47 67 29.5   14 45 60.5 27.5
S5, OT, unif, wholeT_0.01 11 11 34 68   11 10 32.5 68.5
J1, OT-A, last, wholeT_0.01 13 21 9 109   15 19 8 108
S1, OT-A, last, wholeT_0.5 18 39 3 117   5 27 3 116
S1, OT-A, last, singleC 21 38 4 120   12 32 2 120
S5, OT, last, singleC 23 16 51 21   20 8 42 19
S5, OT, last, wholeT_0.5 24 3 55 16   23 3 49 17
J1, OT, unif, wholeT_0.01 29 9 36 91   30 14 36 91
S5, CBN-A, unif, wholeT_0.01 30 4 37 89   40 20 40 103
J5, OT, last, wholeT_0.01 31 5 59 32   36 4 62 50
S1, OT-A, last, wholeT_0.01 36 48 1 134   24 50 1 134
S5, OT, last, wholeT_0.01 38 8 29 83   34 1 24 82
J1, OT, last, wholeT_0.5 47 14 89 61   38 9 83 43
J5, OT, last, singleC 48 35 101 4   58 43 109 4.5
J5, DiP-A, unif, singleC 49 125 139 10.5   51 128 138 9
J5, OT, last, wholeT_0.5 57 20 102 4   75 23 112 4.5
J5, DiP, unif, singleC 61 131 143 8   60 132 144 4.5
J5, DiP, unif, wholeT_0.5 64 144 144 4   64 144 143 4.5
J5, DiP, last, singleC 79 115 140 4   81 119 140 4.5
J5, DiP, last, wholeT_0.5 82 137 138 4   83 136 139 4.5
S5, DiP, last, wholeT_0.5 83 134 120 9   87 130 110 10
J1, DiP, last, wholeT_0.5 91 132 134 4   89 134 134 4.5
J1, DiP, last, singleC 92 110 135 4   93 115 132 4.5
S1, OT-A, unif, wholeT_0.01 102 65 5 136   70 59 5 136
S1, OT, unif, wholeT_0.01 109 62 6 135   74 55 6 135
S1, CBN-A, unif, wholeT_0.01 137 82 7 143   140 81 7 143
S1, CBN-A, last, wholeT_0.01 142 93 10 137   139 94 12 137
S1, CBN, unif, wholeT_0.01 143 84 8 144   143 90 9 144
  1. Methods have been ordered by their performance in the first performance measure. Best 10 methods are shown in bold. Only methods that are within the best 10 in at least one performance measure are shown (full table as well as tables split by S.Size are available from Additional file 2).
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BMC Bioinformatics

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