As well, a DNA content histogram (c) shows individual cell data from the selected image data points (blue), relative to all cells in the experiment (red). Immediately, the corresponding points appear blue in the other open scatterplot (b), allowing the relationship between all of the plotted features to be examined. Data points representing images with high nuclear area (averaged over the cells in the image) and high DNA intensity (averaged over the cells in the image) are highlighted in blue by brushing the scatterplot shown in (a). Relationships among data can be explored.

From this plot, it is apparent that these four data points have high cell and nuclear area (two left-most coordinates) but low cell count (right-most coordinate). The four selected blue data points in the scatterplot are also highlighted in the parallel coordinate plot as blue lines. (d) Parallel coordinate plot where 6 features are plotted, one on each numbered axis as labeled in the table shown below the plot. (c) Density plot of individual cell data (X-axis = area of the cell Y-axis = area of the nucleus. One particular sample and its replicates are highlighted as blue data points, and the blue lines indicate +/- two standard deviations from the mean, although because the data is non-Gaussian, the left standard deviation line is not visible. (b) Scatterplot of image data (X-axis = mean area of all cells in the image Y-axis = mean area of all nuclei in the image). (a) A histogram of per-image data (the mean area of all cells in the image). Four types of plots created by CellProfiler Analyst are shown.

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