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While Sharp et al. attempted to correct for relationships among predictor variables, they did so in an indirect manner, measuring covariance between variables, and their analysis framework did not allow simultaneous adjustment for multiple predictor variables.
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This is performed using the "Minimum Spanning Tree" (MST) correction used by SLiMDisc [8] to correct for evolutionary relationships.
The subnetworks defined by these edges correspond to the "Unrelated Protein Clusters (UPC)" used by the SLiMChance statistics to correct for evolutionary relationships and explicitly model convergent evolution.
We have not attempted a formal population genetics analysis to see if the frequency distribution of mutations is compatible with the neutral theory (such an analysis would be complicated by the need to correct for phylogenetic relationships and the fact that error-prone PCR is biased towards creating certain types of mutations).
Combining the environmental and genetic correlations results in a phenotypic correlation that is corrected for family relationships.
Although this analysis was not used for hypothesis testing, we realize that not correcting for phylogenetic relationships could substantially affect parameter estimation.
As PPP scores are not corrected for taxonomic relationships between species, scores are for comparison within each genome only and are shown down to the first noise hit.
Despite the large number of males, a significantly linear hierarchy was found in the study group (Landau's linearity index corrected for unknown relationships: 0.46, P < 0.0001).
We assessed hierarchy linearity with the linearity index h′ (corrected for unknown relationships, [de Vries, 1995]), which ranges between 0 (not linear) and 1 (strictly linear).
However, our comparative analyses on brain size and innovative feeding/tool use strategies within Corvus, corrected for phylogenetic relationships, reveal no correlation between the variables.
If the LR of the comparison was significant, we concluded there was a significant correlation between the traits after correcting for phylogenetic relationships.
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