) and from the Color by drop down list select HPSC. Use the Rotate Mode (
)to explore the plot from different angles, as shown in Figure 1.
Principal component analysis (PCA) can be invoked on the methylation data to reveal clustering of the samples, but also as a quality control procedure (detection of outliers could point to possible low quality or mislabeled samples). To obtain the PCA plot, switch to the Scatter Plot tab, push Recompute ( ) and from the Color by drop down list select HPSC. Use the Rotate Mode ( )to explore the plot from different angles, as shown in Figure 1.
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