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It is defined in Eq. 4. SA is a standardized accuracy measure for prediction techniques (P i ) based on MAR.
Finally, novel unbiased error metric, such as standardized accuracy (SA), should be used for comparison of models.
The analysis of the standardized accuracy (SA) measure revealed that all best learning schemes selected by the genetic framework outperforms the baseline random guessing by 45 80%.
The analysis of the standardized accuracy (SA) measure reveals that all best learning schemes selected by the genetic framework outperform the baseline random guessing (models outperformed random guessing by 32-60% for MSA and 45-80% for MdSA of all evaluations).
It is a nonparametric correlation coefficient and is defined in Eq. 3. Mean of the absolute residuals (MAR) and the standardized accuracy (SA) are new measures recommended to compare the performance of prediction models (Shepperd and MacDonell 2012; Langdon et al. 2016).
The performance of the learning schemes was measured according to recommended metrics in previous studies: Spearman's rank correlation, mean of the magnitude of relative error, (MMRE), median of the magnitude of relative error (MdMRE), mean of the absolute residuals (MMAR), standardized accuracy (SA), and number of predictions within % of the actual ones (Pred25).
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Thus, taking into account the consistently lower standardized accuracies of predictions of MAS in combination with the potential over-estimation, all further analysis was based on GS using RR-BLUP.
Performing cross-validated genomic selection (GS) using RR-BLUP [ 29] based on the very same dataset, we found consistently higher standardized accuracies of prediction in both populations for all four traits that were analyzed.
This standardized mean accuracy per individual is still higher compared to the mean accuracy per SNP, however, the remaining bias is small and might be explained by a correlation between imputations of markers within a haplotype within an individual [ 34].
The G IBS matrices calculated with and without standardized marker genotypes resulted in similar accuracies.
Adding the angle as an additional feature results in similar accuracies, while generally rescaling the spot profile to a standardized peak magnitude of 1 slightly worsens the result.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com