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Table 1 The Pearson correlation coefficients between the rankings of quality scores yielded from dnAQET and QUAST-LG and the rankings of the reference genome builds by hypothesis

From: dnAQET: a framework to compute a consolidated metric for benchmarking quality of de novo assemblies

 

Human

Mouse

Rat

Chimpanzee

Zebrafish

1. dnAQET Score

1.00

1.00

1.00

1.00

0.98

2. Genome fraction (%)

1.00

1.00

1.00

1.00

0.95

3. Total aligned length

0.97

0.99

0.94

0.94

0.75

4. # indels per 100 kbp

1.00

0.95

1.00

0.66

0.98

5. # mismatches per 100 kbp

0.99

0.99

1.00

0.49

0.98

6. NA50

1.00

0.96

1.00

0.43

0.97

7. LA50

1.00

0.96

1.00

0.43

0.97

8. # scaffold gap ext. mis.

0.99

0.96

0.94

0.43

0.97

9. # N’s per 100 kbp

0.89

0.99

0.43

1.00

0.82

10. # misassemblies

1.00

0.96

0.83

0.26

0.90

11. # local misassemblies

0.99

0.99

0.94

0.09

0.88

12. Unaligned length

0.98

0.96

1.00

0.09

0.83

13. Misass. contigs length

0.73

0.41

0.26

0.60

−0.22

14. Total length

−0.64

0.36

0.54

−0.60

0.70