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Table 2 Performance for human genome assembly

From: BASE: a practical de novo assembler for large genomes using long NGS reads

 

SOAPdenovo2

BASE

Wall time (h)

CPU time (h)

Max memory (GB)

Wall time (h)

CPU time (h)

Max memory (GB)

YH, 100 bp, 36X

Index

4

46

163

5

18

200

Contig

2

2

41

4

53

140

Total

6

48

163

9

71

200

YH, 150 bp, 64X

Index

6

75

201

11

36

192

Contig

1

1

33

5

80

225

Total

7

76

201

16

116

225

NA12878D, 150 bp

Index

9

141

477

9

34

194

Contig

1

1

24

7

144

142

Total

10

141

477

16

178

194

  1. For X Ten data, we used a different machine with larger memory to finish SOAPdenovo2 and BASE assembly, so it is improper to compare the time usage of this dataset to other dataset. Other dataset are all performed in the same machine with 24 CPU