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Table 1 Positive and negative errors for indirect phylogeny inference with varying mutation rate

From: Direct maximum parsimony phylogeny reconstruction from genotype data

SNPs n H Method θ = 0.20 0.25 0.30 0.35 0.40 0.45 0.50 0.55 0.60
5 30 fastPHASE positive errors 2 8 8 13 7 15 14 8 14
5 30 fastPHASE negative errors 1 8 1 5 11 16 19 19 26
5 30 haplotyper positive errors 1 10 2 10 3 6 12 5 12
5 30 haplotyper negative errors 1 8 2 5 11 17 22 21 26
10 30 fastPHASE positive errors 7 12 27 38 28 38 38 27 42
10 30 fastPHASE negative errors 10 12 9 11 24 29 24 23 26
10 30 haplotyper positive errors 7 14 15 23 28 24 37 41 40
10 30 haplotyper negative errors 11 11 12 11 21 31 20 18 25
5 60 fastPHASE positive errors 6 7 7 15 16 13 16 11 14
5 60 fastPHASE negative errors 2 3 3 7 7 7 12 12 21
5 60 haplotyper positive errors 5 3 3 9 7 8 7 7 6
5 60 haplotyper negative errors 2 2 3 9 10 9 14 15 24
10 60 fastPHASE positive errors 24 25 25 29 28 32 43 54 41
10 60 fastPHASE negative errors 4 11 20 14 12 17 27 23 36
10 60 haplotyper positive errors 11 13 14 13 22 25 27 42 34
10 60 haplotyper negative errors 7 12 24 18 11 21 28 22 29
  1. The table separates the phylogenetic errors from the experiments of Figure 2 into positive and negative errors for indirect phylogeny inference using fastPHASE and haplotyper.