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Quantitative measurements for the QTL analysis were calculated for each trait from evaluation scores using within-family yield deviations corrected for fixed environmental effects.
Diversity estimates, including Shannon diversity index, Chao1 estimator and rarefaction analysis, were calculated for operational taxonomic units (OTUs) with 97 % 16S rRNA gene sequence similarity by using the program DOTUR (Schloss and Handelsman 2005).
P values in the ANOSIM analysis were calculated for 999 random changes of labeling of groups.
For this purpose, Z-scores (based on the outcome of the regression analysis) were calculated for each tissue.
The bias, precision and power of each method of analysis were calculated for each scenario.
Logarithm of odds (LOD) thresholds for MQM analysis were calculated for each experiment and each linkage group using 1000 permutations at the 0.05 significance level.
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In this part of the process structural and CFD analysis are calculated for each candidate simultaneously.
Power analysis was calculated for an additive model of inheritance.
Power analysis was calculated for detection of a 40% difference in relative expression of the two alleles, at α = 0.01 (similar to Liu et al. [14]).
An intracranial brain source analysis was calculated for each stable period of time (microstate) found between 0 and 400 ms using the Local Auto-Regressive Average (LAURA) model of the unknown current density in the brain [48].
Pearson correlation analysis was calculated for normally-distrubuted and Spearman correlation for abnormally-distributed variables.
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