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Table 7 Overall analysis of mapped SNPs and running time

From: A tool for mapping Single Nucleotide Polymorphisms using Graphics Processing Units

  

option D disabled

option D enabled

CHIP name

reference build

mapped SNPs

global time

mapped SNPs

global time

HumanOmni 1S

37.1

1.184.688

20 m

1.185.118

1 h 34 m

HumanOmni 1S

37.3

1.185.031

19 m

1.185.103

1 h 30 m

CNV370 v. 3.0

36.1

373.382

56 m

373.382

2 h 5 m

CNV370 v. 3.0

37.3

373.367

52 m

373.371

2 h 2 m

HH300 v. 2.0

36.1

318.237

29 m

318.237

29 m

HH300 v. 2.0

37.3

318.216

37 m

318.216

37 m

  1. The table is divided in two parts. The first summarizes the performance of G-SNPM when only its first stage has been used to remap against the overall genome sequence those SNPs previously unmapped against the same chromosomal sequence detected by the chip vendor (option "D" disabled). The second part of the table summarizes the performance of G-SNPM when both stages have been used to remap against the overall genome sequence those SNPs previously unmapped against the same chromosomal sequence detected by the chip vendor (option "D" enabled).
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BMC Bioinformatics

ISSN: 1471-2105

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