Figure 3

Example data visualization tools within BASE. Images can be resized and exported in several formats. (a) Interactive scatterplot displaying the log₂ (ch1 background corrected mean intensity) versus log₂ (ch2 corrected mean intensity) pseudocolored according to log₂ (ratio). (b) M-A plot [35] of raw data displaying the intensity-dependent LOWESS [26] fitted normalization curve in green. (c) Interactive histogram of log₂ (ch1 corrected median intensity) viewed in relation to spot flag annotations from image analysis software. (d) 3D Data Viewer displaying a rotatable and scalable MDS [28] result, in which samples (shown here as spheres) can be visualized in relation to their biomaterial annotations by changing their shape, color, and texture, or by adding floating text.