Assessing models for genetic prediction of complex traits: a comparison of visualization and quantitative methods

BMC Genomics

Table 1 Predictive accuracy measures in the literature for models for prediction of variants associated with complex traits

			Predictive accuracy measures employed
	Algorithm	Classifier	Area under ROC curve	Positive predictive value	Box plot	Histo-Gram	Violin plot	Mann–Whitney U/Wilcoxon Rank Sum test
Gagliano et al. 2014	Modified Elastic net	GWAS hits vs. non-hits	x	x		x
Iversen et al. 2014	Penalized logistic regression	GWAS hits vs. non-hits	x*
Kircher et al. 2014	Support Vector Machines	High-frequency human-derived alleles vs. simulated variants	x				x	x
Ritchie et al. 2014	Modified Random Forest	HGMD hits vs. non-hits	x		x			x

*reports “Concordance index”, which is equivalent to the area under the ROC curve

ISSN: 1471-2164