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The deviations in the estimates are a consequence of room reflections and interference.
First, we based the regression on log ratios of mutant to wild-type reads (in the following, we abbreviate this approach to WT), which is the commonly used method (e.g., Hietpas et al. 2011)—however, we hypothesized that potential noise in the wild-type measurement that transfers to all measurements could cause deviations in the estimates.
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The effect of outliers on accuracy estimation was evaluated by comparing deviations in the estimated and true accuracies for datasets with and without outliers.
Deviations from this Gaussian distribution cause relevant deviations in the estimated load spectra.
This difference may account for deviations in the estimated LV shape, especially within the basal regions.
- Precision refers to the size of deviations in the estimate of a population parameter in repeat application of a sampling procedure.
These parameters can be estimated reasonably accurately for sample sizes similar to those used here (<10% deviations in the estimated parameters for sample sizes as small as 2,500 sites; Schneider et al. 2011).
In Scenario 3, the real number of different breeding values represented within a single full-sib family is actually limited to four twoo "effective alleles" per parent), which explains the large between-replicate deviations in the estimated heritability.
18 22 They all agree on the modest size of the naturally caused GD in LE with only minor deviations in the estimated extent (up to a maximum of 30% or 2 years of LE).
Finally, we computed descriptive statistics for the deviations in the estimated heritability for the datasets with outliers from the simulated true heritability as the benchmark and compared them with the corresponding deviation of the heritability estimates for the datasets without outliers from the simulated true heritability.
The deviations in the estimated predictive accuracy from the simulated true accuracy with and without (benchmark) outliers showed that outliers had the smallest, albeit similar, effects on methods 5 and 7 but were associated with overestimation of accuracy for all methods except 5 and 7 (Table S5, Figure 3, Figure 4, and Figure 5, Figure S7).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com