A tool for mapping Single Nucleotide Polymorphisms using Graphics Processing Units

BMC Bioinformatics

Table 8 Analysis of the performance at the second stage of G-SNPM

CHIP name	reference build	sequences analyzed	time
HumanOmni 1S	37.1	17	13 m
HumanOmni 1S	37.3	17	12 m
CNV370 v. 3.0	36.1	56	41 m
CNV370 v. 3.0	37.3	81	49 m
HH300 v. 2.0	36.1	10	22 m
HH300 v. 2.0	37.3	36	27 m

A summarization of the performance in terms of running time at the second stage of the G-SNPM. The table shows the number of sequences that G-SNPM tried to align at the second stage and the time required to align them. It is evident a considerable imbalance of the processing time between the first and the second level. The table summarizes the performance with option "D" disabled.

ISSN: 1471-2105