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. 2021 Aug 3;16(8):e0255579. doi: 10.1371/journal.pone.0255579

Table 2. Summary of simulation filtering results.

Simulation Settings Total # Features Removed Avg # Network Features Removed
Signal Total # Data Technique Technique
Strength Features Type SuMO-Fil Low Mean Low Variance SuMO-Fil Low Mean Low Variance
Weak 45305 X 3376 1091 904 0.34 0.76 0
Weak 45305 G 2704 876 720 0.22 0.53 0.00
Moderate 45305 X 3515 1315 165 0 0 15
Moderate 45305 G 2684 1062 135 0 0.28 9.2
Strong 45305 X 7339 1088 165 0 0 15
Strong 45305 G 6364 878 140 0 0.11 10
Weak 25305 X 2089 671 547 0.34 0.78 0
Weak 25305 G 1389 448 375 0.21 0.46 0
Moderate 25305 X 2245 820 165 0.01 0 15
Moderate 25305 G 1507 558 130 0.01 0.34 9.1
Strong 25305 X 5791 659 165 0 0 15
Strong 25305 G 3729 441 140 0 0.10 10
Weak 15305 X 841 232 196 0.40 0.81 0.01
Weak 15305 G 835 228 192 0.15 0.45 0
Moderate 15305 X 1278 280 162 0.02 0 14.7
Moderate 15305 G 1263 274 124 0.01 0.33 8.8
Strong 15305 X 2242 229 161 0 0 14.7
Strong 15305 G 2132 229 138 0 0.11 9.9

The total number of features removed and the number network features erroneously removed are averaged across 500 simulations under each setting accounting for various number of total features and network signal strengths. The simulations contained 15 network features within data type X and 10 network features within data type G. An ideal filtering technique would eliminate no network features to maintain signal for the primary analysis. Additionally, an ideal filtering technique would remove enough features to make an impact on run times for the primary analysis while maintaining sparsity assumptions. The results indicate that the variance filtering technique performs favorably for weak network signals, but performs poorly for the moderate and strong signal strengths in regards to both the number of features removed and the number of network features erroneously removed. The SuMO-Fil performs favorably compared to both the mean and variance filtering techniques under most simulation settings.