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Table 1 Comparison of GenHap and HapCol on the Roche/454 dataset with cov30×

From: GenHap: a novel computational method based on genetic algorithms for haplotype assembly

   

GenHap

HapCol

f SNPs

cov

#SNPs

Avg HE

Std dev HE

Avg running time [s]

Avg HE

Std dev HE

Avg running time [s]

100

30×

500

0.04

0.08

0.21

0.00

0.00

0.62

  

1000

0.09

0.08

0.36

0.00

0.00

1.20

  

5000

0.18

0.06

3.17

0.01

0.03

5.35

  

10000

2.50

5.52

10.33

6.55

16.38

10.23

200

30×

500

0.09

0.14

0.34

0.00

0.00

0.50

  

1000

0.09

0.10

0.63

0.01

0.03

0.96

  

5000

3.61

3.43

6.07

0.38

0.78

4.90

  

10000

2.15

1.62

17.24

N/A

N/A

N/A

  1. The performances were evaluated both in terms of HE and running time. The N/A symbol denotes that HapCol was not able to complete the execution on all the 15 instances