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Table 5 Running time (min) and memory usage (GB) of each mapping method on three datasets

From: smsMap: mapping single molecule sequencing reads by locating the alignment starting positions

  

smsMap

BWA-MEM

BLASR

lordFAST

minimap2

GraphMap*

NGMLR

E. coli

Time

0.83

0.85

1.28

0.27

0.17

0.95

1.32

Memory

2.34

1.29

0.51

1.84

2.44

0.88

11.234

A. thaliana

Time

3

32

24

3

2

6

12

Memory

2.56

1.25

3.58

2.03

4.94

3.19

11.45

C. elegans

Time

10

87

61

10

2

24

25

Memory

2.52

2.11

3.58

2.04

8.53

3.18

11.60

H. sapiens

Time

9

69

63

30

4

–

17

Memory

9.34

6.48

26.71

6.84

11.16

–

15.78

  1. *Due to that GraphMap always appears core dumped information for H. sapiens dataset, it does not output the results
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BMC Bioinformatics

ISSN: 1471-2105

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