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Fig. 5 | Plant Methods

Fig. 5

From: High-throughput estimation of allele frequencies using combined pooled-population sequencing and haplotype-based data processing

Fig. 5

The correlation of simulated individual allele frequency to the simulated pool allele frequency in a simulated BC2F3 population. The y-axis presents the pooled sample allele frequency on different levels, while the x-axis shows the ‘true’ individual genotyping derived allele frequency. The dashed line indicates the optimal fit, while the color illustrated the read coverage level per SNP/ haplotype. A comparison of SNP-based pool sample allele frequency against the individual genotyping allele frequency. B Comparing HAF without a minimum threshold for read coverage per haplotype (min reads observed12). C Comparing HAF to the individual genotyping allele frequency. on a minimum coverage level of 200 reads per haplotype. D Comparing HAF on a minimum coverage level of 500 reads per haplotype

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