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Table 2 Accuracy of SNP detection produced by MapNext.

From: MapNext: a software tool for spliced and unspliced alignments and SNP detection of short sequence reads

Coverage

True Positives

False Positives

4×

1961 (90.70%)

690 (29.51%)

6×

1998 (92.41%)

23 (1.06%)

8×

2015 (93.20%)

8 (0.37%)

10×

2043 (94.50%)

0 (0.00%)

12×

2068 (95.65%)

0 (0.00%)

  1. 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.
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BMC Genomics

ISSN: 1471-2164

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