Four types of plots can be created. Four types of plots created by CellProfiler Analyst are shown. (a) A histogram of per-image data (the mean area of all cells in the image). (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). 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. (c) Density plot of individual cell data (X-axis = area of the cell; Y-axis = area of the nucleus. (d) Parallel coordinate plot where 6 features are plotted, one on each numbered axis as labeled in the table shown below the plot. The four selected blue data points in the scatterplot are also highlighted in the parallel coordinate plot as blue lines. 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).
Jones et al. BMC Bioinformatics 2008 9:482 doi:10.1186/1471-2105-9-482