(a and b) Actual Versus Predicted Allele Frequencies in Pooled Samples. These two Figures show the correlation between predicted (X-axis) and observed (Y-axis) non-reference allele frequencies in the two pooled gDNA samples before SOLiD library preparation, namely sample/library 768_1L (replicate 1; Figure 2a) and 768_2L (replicate 2; Figure 2b). For each positive control SNP, a genotype was inferred from the non-pooled sequencing samples. Composite SNP allele frequencies were calculated for each pool and compared to the actual SNP allele frequencies. R2 values represent the square of the Pearson coefficient and reveal good correlation between samples (0.9045 and 0.9261 of sample 768_1L and 768_2L, respectively).
ElSharawy et al. BMC Genomics 2012 13:500 doi:10.1186/1471-2164-13-500