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Based on mean distance criteria, the best wavelet family (i.e., biorthogonal3.1 (bisr3.1)) iselecteded for classifier design.
In Table 3, each cell represents a separate logistic regression model on the relation between accessibility to each type of food outlet (defined based on mean distance from participants' residence), as well as tertiles of WRFEI and odds of obesity.
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Net relatedness index (NRI) of the bacterial communities was calculated based on mean phylogenetic distance [43, 44], using a null model of random community phylogenetic relationships (picante package ; 999 runs, not abundance weighted).
To compute the closeness of the node and the cluster representative, different methods based on mean, Euclidean distance and probability have been in practice.
The NRI is based on mean phylogenetic distance across the whole community, and is more positive when the overall microbial community is more phylogenetically clustered than the null model, indicating less tree-wide dispersion.
The NJ analysis [ 58] of the amino acid alignment was based on mean character distances using Mega3 software [ 59]; bootstrap support values were obtained with 1,000 repetitions.
The neighbor-joining (NJ) phylogenetic analysis [ 107] of the amino acid alignments was also carried out based on mean character distances.
Similarly, the estimated ages of three subclusters of Clade B are 5940 ± 900, 5500 ± 2420 and 4950 ± 1540 years, based on mean genetic distances to their central nodes of 0.54 ± 0.09, 0.50 ± 0.22 and 0.45 ± 0.14 substitutions, respectively.
The NJ tree [ 67] was constructed based on mean character differences (distance) and bootstrap support values were determined based on 10,000 neighbor joining replicates.
A neighbour-joining tree based on mean corrected pair-wise distance between colonies further confirms the split (Fig. 4A).
Substitution rates in aaRS sequences were estimated based on mean maximum-likelihood WAG distances between aaRS from Ca. owczarzaki and sequences from ingroup choanozoan species, computed with the R package phangorn (Schliep 2011).
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