Table 2

Accuracy of SNP detection produced by MapNext.

Coverage

True Positives

False Positives


1961 (90.70%)

690 (29.51%)

1998 (92.41%)

23 (1.06%)

2015 (93.20%)

8 (0.37%)

10×

2043 (94.50%)

0 (0.00%)

12×

2068 (95.65%)

0 (0.00%)


There were 2162 true SNPs in 50 individuals (haploid) in our simulation. Coverage equals sequencing depth per individual. QV, NQV, MMAF and MC were set at 25, 20, 0.01 and 50 (1× per individual), respectively.

Bao et al. BMC Genomics 2009 10(Suppl 3):S13   doi:10.1186/1471-2164-10-S3-S13

Open Data