Table 6

Evaluation of R. sphaeroides (genome size 4,603,060 bp)

Assembler

Num

N50 (kb)

N50

corr. (kb)

Indel

> 5 bp

Misjoins

Precision

Recall

# of valid

contig

(> 200 bp)

# of invalid

contig

(> 200 bp)


ABySS

1915

5.9

4.2

34

21

79.78%

86.13%

1744

171

ALLPATHS-LG

204

42.5

34.4

37

6

81.49%

81.22%

183

21

Bambus2

177

93.2

12.8

363

5

48.65%

46.21%

129

48

CABOG

322

20.2

17.9

24

10

92.55%

85.21%

310

12

MSR-CA

395

22.1

19.1

32

10

93.35%

90.55%

363

32

SGA

3066

4.5

2.9

4

4

97.23%

94.56%

2758

308

SOAPdenovo

204

131.7

14.3

406

8

70.86%

70.75%

134

70

Velvet

583

15.7

14.5

27

8

94.41%

92.37%

545

38

CloudBrush

661

12.8

12.7

10

2

96.21%

95.85%

567

94


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

Open Data