The oligonucleotide frequency derived error gradient and its application to the binning of metagenome fragments

BMC Genomics

Table 2 Overall ranking in terms of discriminant ability.

	Type	avg. assigns.	avg. S_p	avg. S_n	Discriminant ability
OFDEG+GC (CP = 55%)	semi-supervised	63.65%	0.9400	0.9950	0.9675
OFDEG+GC	unsupervised	97.33%	0.9513	0.9525	0.9519
TF (CP = 75%)	semi-supervised	83.44%	0.9925	0.8925	0.9425
OFDEG+GC (CP = 75%)	semi-supervised	77.75%	0.8000	0.9625	0.8813
TF (CP = 55%)	semi-supervised	69.28%	1.0000	0.7450	0.8725
OFDEG	unsupervised	97.34%	0.9100	0.8300	0.8700
TF	unsupervised	97.34%	0.9905	0.6565	0.8235

Discriminant ability is given by the average of the sensitivity (S_n) and specificity (S_p) values. In this case, we take the average of the average specificity and sensitivity over all tests conducted. We see that both the unsupervised and semi-supervised methods which use OFDEG+GC as a feature space perform best overall with respect to the simMC tests. Though the semi-supervised method outperforms the unsupervised method, the average number of assignments made by the unsupervised variant is far greater.

ISSN: 1471-2164