The entropy values as defined with Eq. 20 for each combination of the PIN graph representation and a clustering algorithm.

Lower values yield smaller coverage of the average cluster, i.e. fewer mistakes during the term assignment process, but on the downside the necessary terms for complete annotation of a query protein may be lacking. In terms of the definitions used for the annotation validation this would mean that lower entropy values yield lower False Positives (FPs), but higher False Negatives (FNs). The inverse holds for higher entropy values.