Fig. 5: Summary of score function comparisons.
Comparison of different score functions (one per column) for different applications and protocols, using the PNear metric as an indication of “funnel quality”. PNear falls between 0 (no funnel or incorrect global minimum) and 1 (the perfect funnel). The lambda parameter indicates the spread on the x-axis and is set to 4.0 in our comparison. Cells are colored according to the color bar on the right, teal is better. Unavailable data is indicated in gray. A The panel uses a “winner-takes-all” comparison: for each protein, the score function with the highest (i.e., best) PNear value (see methods) gets a point. Points are then summed by column, identifying the score function with the most and highest PNear values across proteins, the higher the better. B The averages of the PNear values for each score function were used, i.e., computed over each column. Higher values are better.
