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Table 5 Success rate (%) of data analysis methods for a number of additional nuclear loci; DNA sequences were simulated for two species, for a sample size n = 10 and a speciation time T = 500 (N/2); the mutation parameter θ was either 3 (A) or 30 (B).

From: DNA barcode analysis: a comparison of phylogenetic and statistical classification methods

Number of
nuclear loci (nl)
NJ PhyML 1-NN CART RF Kernel P < 0.05 P < 0.01
(A) θ = 3         
0 † 87.25 86.30 87.30* 87.15 86.40 87.15   
1 88.05 ¶ 87.10 ¶ 91.40 * 89.70 83.55 ¶ 83.70 ¶ 4 4
2 90.60 ¶ 90.35 ¶ 95.00 * 93.20 ¶ 86.25 ¶ 86.80 ¶ 5 4
3 92.80 ¶ 92.40 ¶ 96.20 * 95.05 88.95 ¶ 89.75 ¶ 4 4
4 94.70 ¶ 94.60 ¶ 97.70 * 96.55 ¶ 91.30 ¶ 91.90 ¶ 5 4
(B) θ = 30         
0 † 96.10 96.20 * 95.55 93.50 ¶ 95.25 94.00 ¶ 1 1
1 96.00 96.20 96.80 95.95 97.00* 96.10   
2 98.55* 98.55* 98.35 98.05 98.15 97.60   
3 99.40 99.30 99.50 * 98.95 ¶ 99.40 98.75 1 1
4 99.75 * 99.70 99.75 * 99.50 99.75 * 99.50   
  1. * Best score
  2. ¶significantly below the best score. Columns 8 and 9 indicate the number of methods with p-values below 0.05 and 0.01 respectively.
  3. † Focal set of parameters, for comparison across tables.