Table 1.
Data Set | Supertree Method | SPR Distance | RF-Distance | Parsimony Score | Time (s) |
Marsupial (267 taxa; 158 trees) | SPR | 382 | 1604 | 2203 | 1097.79 |
SPR–RF–TIES | 373 | 1536 | 2149 | 767.01 | |
SPR–MRP | 380 | 1534 | 2126 | 219.64 | |
RF-Ratchet | 386 | 1510 | 2142 | 688.55 | |
RF–MRP | 381 | 1502 | 2118 | 662.95 | |
MRP–TBR | 379 | 1514 | 2112 | 20.52 | |
Seabirds (121 taxa; 7 trees) | SPR | 17 | 109 | 235 | 31.15 |
SPR–RF–TIES | 17 | 63 | 208 | 29.44 | |
SPR–MRP | 17 | 61 | 208 | 2.04 | |
RF-Ratchet | 17 | 61 | 210 | 6.34 | |
RF–MRP | 17 | 61 | 209 | 5.87 | |
MRP–TBR | 17 | 61 | 208 | 1.03 | |
Placental mammals (116 taxa; 726 trees) | SPR | 1715 | 5908 | 8946 | 5561.84 |
SPR–RF–TIES | 1713 | 5902 | 8934 | 5040.03 | |
SPR–MRP | 1713 | 5876 | 8921 | 1819.08 | |
RF-Ratchet | 1784 | 5718 | 8830 | 442.697 | |
RF–MRP | 1781 | 5694 | 8820 | 430.77 | |
MRP–TBR | 1783 | 5702 | 8809 | 34.27 | |
Legumes (558 taxa; 19 trees) | SPR | 108 | 651 | 1175 | 21130.08 |
SPR–RF–TIES | 92 | 471 | 1037 | 12376.00 | |
SPR–MRP | 110 | 511 | 903 | 276.49 | |
RF-Ratchet | 126 | 409 | 1095 | 403.513 | |
RF–MRP | 136 | 451 | 1081 | 397.62 | |
MRP–TBR | 140 | 519 | 891 | 579.76 |
Notes: Six analyses are shown: The SPR supertree method starting from an SPR greedy addition tree (SPR) or MRP supertree (SPR–MRP), the SPR supertree method breaking ties with the RF distance using a greedy addition tree (SPR–RF–TIES), the RF supertree method starting from random addition sequence trees (RF-Ratchet) or MRP supertree (RF–MRP), and MRP with TBR global rearrangements (MRP–TBR). The best optimization criteria or running times for a data set are shown in bold.