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Table 2 Sensitivity evaluation of the different tools

From: Benchmarking short sequence mapping tools

  

Bowtie

Bowtie2

BWA

SOAP2

MAQ

RMAP

GSNAP

Novoalign

mrsFAST

Mapped

Expected

93.57

93.25

91.29

91.29

93.57

90.12

93.25

96.18

93.25

 

Actual

93.43

85.54

91.29

91.29

92.92

82.53

93.25

96.02

93.25

 

Error

   

0.73

  

0.03

  

Unmapped

Expected

6.43

6.75

8.71

8.71

6.43

9.88

6.75

3.82

6.75

 

Actual

6.25

6.68

8.32

6.83

5.08

8.29

3.66

3.81

6.62

 

Error

   

1.73

1.25

1.5

2.97

  

Reported mapped

 

93.61

85.61

91.68

93.17

94.27

84.11

96.34

96.03

93.38

Reported correct

 

93.61

85.61

91.68

90.71

93.02

82.61

93.37

96.03

93.38

  1. Evaluating the sensitivity of the tools on a data set of 1 million reads of length 70 generated by ART. The numbers are in percentage. The Reported mapped percentage is the total percentage of reads mapped by each tool. It is equal to Actual Mapped + (Expected Unmapped- Actual Unmapped) while Reported correct is the total number of correctly mapped reads.