Core Hunter II: fast core subset selection based on multiple genetic diversity measures using Mixed Replica search

Table 6 Results of Mixed Replica search vs. REMC – original measures (int = 0.05)

Algorithm^∗	MR	(t)	CE	(t)	SH	(t)	HE	(t)	NE	(t)	Mixed^∗∗	(t)
	Bulk maize data set (275)
REMC	0.643	0.35s	0.700	0.35s	4.568	0.65s	0.685	0.55s	3.631	3.0s	10.790	7.0s
MixRep	0.643	0.19s	0.700	0.29s	4.568	0.50s	0.685	0.42s	3.631	2.0s	10.790	2.0s
Original	0.440		0.521		4.399		0.620		2.937
	Accession maize data set (521)
REMC	0.723	0.75s	0.782	2.0s	4.724	2.0s	0.702	5.0s	3.886	6.0s	11.216	50.0s
MixRep	0.723	0.38s	0.782	0.68s	4.724	0.83s	0.702	1.7s	3.887	3.5s	11.216	10.2s
Original	0.630		0.696		4.467		0.591		2.742
	Flax data set (708)
REMC	0.533	3.0s	0.533	3.0s	5.358	2.0s	0.278	3.0s	1.504	4.0s	8.965	30.0s
MixRep	0.533	0.81s	0.533	0.82s	5.358	0.76s	0.278	0.97s	1.504	1.5s	8.965	11.2s
Original	0.468		0.468		5.285		0.222		1.377
	Pea data set (1283)
REMC	0.626	10.0s	0.629	7.0s	3.578	2.0s	0.451	3.0s	1.898	2.0s	8.083	40.0s
MixRep	0.626	1.4s	0.629	1.2s	3.578	0.62s	0.451	0.55s	1.898	0.95s	8.084	11.0s
Original	0.509		0.515		3.482		0.381		1.713
	Large pea data set ^▾ (4429)
REMC	0.633	06m05s	0.634	36.8s	3.515	27.6s	0.492	13.9s	1.982	06m53s	8.147	09m36s
MixRep	0.635	7.5s	0.637	13.0s	3.518	2.1s	0.496	8.9s	1.983	9.6s	8.158	02m15s
Original	0.464		0.466		3.348		0.352		1.609

^*For each combination of algorithm, dataset and evaluation measure, 20 independent runs were performed from which averaged results are reported. By default runs were limited by a runtime of 60 seconds, except for the large pea dataset where a runtime limit of 10 minutes was applied.
^**Results shown are those of a pseudo-index containing all seven measures with equal weights.
^▾These results were computed on the helios server.

ISSN: 1471-2105