Figure 4.
Selection of the T1 and T2 thresholds. (A) Distribution of Jaccard coefficients across all pathway pairs. T1 and T2 respectively represent the lower and upper cutoffs used in the algorithm employed. (B) Us + Is scores across combinations of T1 and T2. The diagonal (T1 = T2) represents pure hierarchical clustering with different thresholds. The best scores are attained when T1 = 0.3 and T2 ≥ 0.5. (C) Determination of T2. T2 (upper cutoff) was determined by resampling of the pathway data at two dilution levels (27), 0.75 and 0.9. In both cases J = 0.7 was found to be the optimum in which a higher fraction of the original clustering is recovered.