Table 5

Evaluation of S aureus (genome size 2,872,915 bp)

Assembler

Num

N50 (kb)

N50

corr. (kb)

Indel

> 5 bp

Misjoins

Precision

Recall

# of valid

contigs (> 200 bp)

# of invalid

contigs

(> 200 bp)


ABySS

302

29.2

24.8

9

5

75.06%

94.31%

219

83

ALLPATHS-LG

60

96.7

66.2

12

4

93.35%

92.28%

55

5

Bambus2

109

50.2

16.7

164

13

63.20%

61.69%

90

19

MSR-CA

94

59.2

48.2

10

12

90.14%

88.96%

79

15

SGA

1252

4

4

2

4

97.95%

95.61%

1134

118

SOAPdenovo

107

288.2

62.7

31

17

60.22%

60.35%

59

48

Velvet

162

48.4

41.5

14

14

82.66%

81.08%

136

26

CloudBrush

527

9.7

9.5

2

10

96.72%

96.00%

447

80


Chang et al. BMC Genomics 2012 13(Suppl 7):S28   doi:10.1186/1471-2164-13-S7-S28

Open Data