Anchoring quartet-based phylogenetic distances and applications to species tree reconstruction

BMC Genomics

Table 1 DISTIQUE variants on simulated datasets

Dataset	#genes	All-pairs	Tree-sum	Distance-sum
avian-0.5X	1000	0.10	0.11	0.11
avian-1X	1000	0.08	0.09	0.08
avian-2X	1000	0.05	0.08	0.06
mammalian-0.2X	200	0.11	0.13	0.11
mammalian-0.5X	200	0.06	0.12	0.07
mammalian-1X	200	0.04	0.08	0.04
mammalian-2X	200	0.02	0.04	0.02
simphySize-10	50	0.03	0.03	0.03
simphySize-10	200	0.02	0.02	0.02
simphySize-10	1000	0.02	0.02	0.02
simphySize-50	50	0.07	0.10	0.07
simphySize-50	200	0.04	0.07	0.04
simphySize-50	1000	0.03	0.04	0.04
simphySize-100	50	0.08	0.11	0.08
simphySize-100	200	0.05	0.06	0.05
simphySize-100	1000	0.03	0.05	0.04

Distance-sum and tree-sum are both based on 8 rounds. For simPhy-size, all-pairs could not finish given two days of running time for more than 100 species. Where there is at least 1 % difference between methods, the best method is shown in bold

ISSN: 1471-2164