Skip to main content
Figure 1 | BMC Bioinformatics

Figure 1

From: Calculation of Tajima’s D and other neutrality test statistics from low depth next-generation sequencing data

Figure 1

The effect of genotype calling for low or medium coverage data using Tajima’s D . The difference between estimated and known Tajima’s D statistic for three different scenarios with 10 different p-value cutoffs. Each box is estimated on the basis of 100 1 MB regions. Subfigure ‘a)’ is based on genotypes called using the frequency as prior, GC-hwe, and Subfigure ‘b)’ is based on genotypes called using a maximum likelihood approach, GC-mLike. We have included the EB method for the 3 different scenarios in the right side of the figures. Notice that no single best cutoff can be chosen across the three different scenarios for the genotype calling based methods.

Back to article page