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Figure 3 | BMC Bioinformatics

Figure 3

From: Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples

Figure 3

MA-like plots for comparing call rates of samples between two experiments with different batch compositions. The empty circles depict the 270 samples. The x-axes represent average call rates of individual samples in two experiments with different batch compositions. The horizontal dotted lines indicate the expected locations of samples where the call rates in the two compared experiments were exact same. A: Comparison between BC1 and BC2. The y-axis represents call rate in BC1 – call rate in BC2. B: Comparison between BC1 and BC3. The y-axis represents call rate in BC1 – call rate in BC3. C: Comparison between BC2 and BC3. The y-axis represents call rate in BC2 – call rate in BC3.

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BMC Bioinformatics

ISSN: 1471-2105

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