From: JOA: Joint Overlap Analysis of multiple genomic interval sets
Simulations 1st Scenario (#ofFiles,#ofIntervals) | Average execution times in seconds | ||||||
---|---|---|---|---|---|---|---|
(1n,1ppn) | (1n,2ppn) | ||||||
GROK | BEDOPS | BEDTools | JOA ST | JOA ISTF | JOA ST | JOA ISTF | |
(2,100000) | 0.6973 | 0.0366 | 0.2380 | 1.0846 | 1.2861 | 0.6677 | 0.7121 |
(4,100000) | 1.3527 | 0.0397 | 3.8666 | 1.4480 | 1.7342 | 1.0410 | 1.0932 |
(8,100000) | 2.7232 | 0.0447 | 8.2620 | 2.0175 | 2.4720 | 1.4686 | 1.5197 |
(16,100000) | 5.7325 | 0.0565 | 18.9487 | 2.8402 | 3.6387 | 2.0252 | 2.3860 |
(32,100000) | 12.5799 | 0.0819 | 45.7564 | 4.4840 | 5.4132 | 3.0647 | 3.6630 |
(64,100000) | 30.2584 | 0.1283 | 116.7736 | 6.9214 | 7.9966 | 4.5746 | 5.4844 |
(128,100000) | 66.7122 | 0.2131 | 312.8438 | 12.1682 | 13.6740 | 7.4285 | 8.3240 |
(256,100000) | - | 0.4229 | 891.2454 | 22.6010 | 24.0628 | 15.3915 | 16.2595 |
(512,100000) | - | 0.8283 | 2887.3816 | 42.0187 | 45.3321 | 26.9868 | 28.8161 |