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Figure 1 | BMC Bioinformatics

Figure 1

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

Figure 1

MA-like plots for comparing call rates of samples between two experiments with different batch sizes. The empty circles depict the 270 samples. The x-axes represent average call rates of individual samples in two experiments with different batch sizes. The horizontal dotted lines indicate where values of the expected call rates are the same in the two compared experiments. A: Comparison between BS1 and BS2. The y-axis represents call rate in BS1 – call rate in BS2. B: Comparison between BS1 and BS3. The y-axis represents call rate in BS1 – call rate in BS3. C: Comparison between BS2 and BS3. The y-axis represents call rate in BS2 – call rate in BS3.

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BMC Bioinformatics

ISSN: 1471-2105

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