Tabu Search was implemented for the bioinformatic optimisation system. The Parameter Sweeper module was used to discover the optimal parameters for the Tabu Search algorithm.
The algorithm was optimised separately for different objectives on the SOAPdt dataset.
analyseObjective("n50")
## Df Sum Sq Mean Sq F value
## hood_size 1 3.37e+07 33689042 1034.11
## sd_divisor 1 1.48e+07 14826105 455.10
## inc_prop 1 1.32e+06 1316722 40.42
## bt_cutoff 1 1.04e+05 103604 3.18
## hood_size:sd_divisor 1 7.88e+06 7880921 241.91
## hood_size:inc_prop 1 2.40e+05 240484 7.38
## sd_divisor:inc_prop 1 1.37e+06 1373404 42.16
## hood_size:bt_cutoff 1 1.01e+05 101337 3.11
## sd_divisor:bt_cutoff 1 2.63e+05 263060 8.07
## inc_prop:bt_cutoff 1 3.02e+04 30194 0.93
## hood_size:sd_divisor:inc_prop 1 4.33e+05 433118 13.29
## hood_size:sd_divisor:bt_cutoff 1 5.41e+03 5409 0.17
## hood_size:inc_prop:bt_cutoff 1 1.81e+03 1810 0.06
## sd_divisor:inc_prop:bt_cutoff 1 2.94e+03 2945 0.09
## hood_size:sd_divisor:inc_prop:bt_cutoff 1 4.21e+02 421 0.01
## Residuals 9487 3.09e+08 32578
## Pr(>F)
## hood_size < 2e-16 ***
## sd_divisor < 2e-16 ***
## inc_prop 2.1e-10 ***
## bt_cutoff 0.07457 .
## hood_size:sd_divisor < 2e-16 ***
## hood_size:inc_prop 0.00660 **
## sd_divisor:inc_prop 8.8e-11 ***
## hood_size:bt_cutoff 0.07782 .
## sd_divisor:bt_cutoff 0.00450 **
## inc_prop:bt_cutoff 0.33571
## hood_size:sd_divisor:inc_prop 0.00027 ***
## hood_size:sd_divisor:bt_cutoff 0.68366
## hood_size:inc_prop:bt_cutoff 0.81364
## sd_divisor:inc_prop:bt_cutoff 0.76368
## hood_size:sd_divisor:inc_prop:bt_cutoff 0.90950
## Residuals
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## hood_size sd_divisor inc_prop bt_cutoff mean sd
## 35 5 5 0.15 2.5 148.5 50.74
analyseObjective("largest")
## Df Sum Sq Mean Sq F value
## hood_size 1 21229820 21229820 2757.78
## sd_divisor 1 7463057 7463057 969.46
## inc_prop 1 7 7 0.00
## bt_cutoff 1 8548 8548 1.11
## hood_size:sd_divisor 1 6122496 6122496 795.32
## hood_size:inc_prop 1 23560 23560 3.06
## sd_divisor:inc_prop 1 992 992 0.13
## hood_size:bt_cutoff 1 60 60 0.01
## sd_divisor:bt_cutoff 1 1824 1824 0.24
## inc_prop:bt_cutoff 1 1534 1534 0.20
## hood_size:sd_divisor:inc_prop 1 42223 42223 5.48
## hood_size:sd_divisor:bt_cutoff 1 126 126 0.02
## hood_size:inc_prop:bt_cutoff 1 15001 15001 1.95
## sd_divisor:inc_prop:bt_cutoff 1 721 721 0.09
## hood_size:sd_divisor:inc_prop:bt_cutoff 1 10708 10708 1.39
## Residuals 9584 73779078 7698
## Pr(>F)
## hood_size <2e-16 ***
## sd_divisor <2e-16 ***
## inc_prop 0.975
## bt_cutoff 0.292
## hood_size:sd_divisor <2e-16 ***
## hood_size:inc_prop 0.080 .
## sd_divisor:inc_prop 0.720
## hood_size:bt_cutoff 0.930
## sd_divisor:bt_cutoff 0.626
## inc_prop:bt_cutoff 0.655
## hood_size:sd_divisor:inc_prop 0.019 *
## hood_size:sd_divisor:bt_cutoff 0.898
## hood_size:inc_prop:bt_cutoff 0.163
## sd_divisor:inc_prop:bt_cutoff 0.760
## hood_size:sd_divisor:inc_prop:bt_cutoff 0.238
## Residuals
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## hood_size sd_divisor inc_prop bt_cutoff mean sd
## 39 5 5 0.2 2.5 60.9 33.94
analyseObjective("brm_paired")
## Df Sum Sq Mean Sq F value
## hood_size 1 3.89e+07 38926950 2494.37
## sd_divisor 1 8.79e+06 8790572 563.28
## inc_prop 1 4.05e+05 404520 25.92
## bt_cutoff 1 4.55e+03 4546 0.29
## hood_size:sd_divisor 1 1.04e+07 10402635 666.58
## hood_size:inc_prop 1 5.57e+04 55718 3.57
## sd_divisor:inc_prop 1 8.86e+04 88610 5.68
## hood_size:bt_cutoff 1 5.38e+03 5383 0.34
## sd_divisor:bt_cutoff 1 2.60e+01 26 0.00
## inc_prop:bt_cutoff 1 1.71e+03 1709 0.11
## hood_size:sd_divisor:inc_prop 1 1.60e+05 160146 10.26
## hood_size:sd_divisor:bt_cutoff 1 1.21e+03 1208 0.08
## hood_size:inc_prop:bt_cutoff 1 3.13e+02 313 0.02
## sd_divisor:inc_prop:bt_cutoff 1 7.97e+03 7966 0.51
## hood_size:sd_divisor:inc_prop:bt_cutoff 1 3.48e+03 3484 0.22
## Residuals 9582 1.50e+08 15606
## Pr(>F)
## hood_size < 2e-16 ***
## sd_divisor < 2e-16 ***
## inc_prop 3.6e-07 ***
## bt_cutoff 0.5894
## hood_size:sd_divisor < 2e-16 ***
## hood_size:inc_prop 0.0589 .
## sd_divisor:inc_prop 0.0172 *
## hood_size:bt_cutoff 0.5570
## sd_divisor:bt_cutoff 0.9672
## inc_prop:bt_cutoff 0.7407
## hood_size:sd_divisor:inc_prop 0.0014 **
## hood_size:sd_divisor:bt_cutoff 0.7808
## hood_size:inc_prop:bt_cutoff 0.8874
## sd_divisor:inc_prop:bt_cutoff 0.4750
## hood_size:sd_divisor:inc_prop:bt_cutoff 0.6366
## Residuals
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## hood_size sd_divisor inc_prop bt_cutoff mean sd
## 35 5 5 0.15 2.5 80.6 32.8