What is Multi-Dimensional Scaling?
You can use multi-dimensional scaling to represent high dimensional data graphically in 3-dimensions. The pair-wise similarity is preserved, so points on the plot close to each other are more similar than points far apart. If you use Euclidean distances as the MDS distance metric, MDS is equivalent to Principle Component Analysis (PCA). BRB-ArrayTools offers MDS of samples as a feature. You can create 3-D rotating plots, labeled by group identifier, to examine the similarity/dissimilarity of your samples. The rotating plots can be included in a PowerPoint presentation.
