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Table 2 Comparison of true and reconstructed splits and weights on the artificial network by 6 methods

From: Quartet-based methods to reconstruct phylogenetic networks

True Phylo QuartetS QuartetA QuartetM Quartet-Net Neighbor-Net Neighbor-Joining
Split Wei Split Wei BV Split Wei BV Split Wei BV Split Wei BV Split Wei BV Split Wei BV
ab 1 ab 1.08 100 ab 1.09 100 ab 1.12 100 ab 1.08 100 ab 0.76 80 ab 0.41 56
abc 4 abc 4 100 abc 4 100 abc 4 100 abc 4 100 abc 4 100 abc 4 100
abd 1 abd 1.03 100 abd 1.03 100 abd 1.03 100 abd 1.02 100 abd 1.32 50    
abcd 4 abcd 3.99 100 abcd 3.99 100 abcd 3.99 100 abcd 3.99 100 abcd 4.17 100 abcd 3.97 100
abce 1 abce 1.01 100 abce 1.02 100 abce 1.01 100 abce 1.01 100 abce 0.86 46    
abcg 1 abcg 1.03 100 abcg 1.03 100 abcg 1.03 100 abcg 1.02 100 abcg 0.89 54    
aefg 1 aefg 1.02 100 aefg 1.03 100 aefg 1.02 100 aefg 1.02 100 aefg 1.39 50    
abcde 1 abcde 1.08 100 abcde 1.09 100 abcde 1.12 100 abcde 1.07 100 abcde 0.76 67 abcde 0.39 46
abcdg 1 abcdg 1.07 100 abcdg 1.08 100 abcdg 1.11 100 abcdg 1.07 100 abcdg 0.71 68 abcdg 0.39 54
abceg 2 abceg 2.07 100 abceg 2.09 100 abceg 2.12 100 abceg 2.07 100 abceg 2.36 47    
acefg 2 acefg 2.06 100 acefg 2.07 100 acefg 2.11 100 acefg 2.06 100 acefg 2.23 8    
adefg 1 adefg 1.08 100 adefg 1.09 100 adefg 1.12 100 adefg 1.07 100 adefg 0.76 73 adefg 0.43 44
a 10 a 10.31 100 a 10.15 100 a 10.17 100 a 10.43 100 a 10.07 100 a 9.42 100
b 6 b 6.25 100 b 6.11 100 b 6.07 100 b 6.33 100 b 7.62 100 b 7.15 100
c 10 c 10.26 100 c 10.11 100 c 10.12 100 c 10.38 100 c 10.05 100 c 9.40 100
d 4 d 4.21 100 d 4.06 100 d 4.08 100 d 4.26 100 d 6.02 100 d 6.82 100
e 10 e 10.28 100 e 10.14 100 e 10.16 100 e 10.41 100 e 10.12 100 e 9.43 100
f 6 f 6.25 100 f 6.11 100 f 6.06 100 f 6.34 100 f 7.22 100 f 7.11 100
g 10 g 10.31 100 g 10.16 100 g 10.18 100 g 10.44 100 g 10.14 100 g 9.47 100
            ac 0.08 99 abdfg 0.04 15    
            abcdf 0.08 97 ag 0.04 13    
            acdeg 0.02 74 ae 0.03 12    
            acdef 0.03 66 abdef 0.04 10    
            ae 0.04 65       
            abdeg 0.03 65       
            ag 0.04 64       
            abdfg 0.04 64       
            acdfg 0.02 62       
            abdef 0.04 59       
            af 0.03 58       
  1. The column “True Phylo” denotes the underlying truth and the columns “QuartetS”, “QuartetA”, “QuartetM”, “Quartet-Net”, “Neighbor-Net”, and “Neighbor-Joining” denote the reconstructed results by each method respectively. In addition, “Wei” denotes the average weight of the corresponding split over 100 runs; “BV” denote bootstrap value.