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To analyze the technical reproducibility of coverages between samples we created a scatter plot and computed Pearson's coefficient of correlation for pairs of samples, and summarized these coefficients for all samples in the form of a correlation matrix (Additional file 3: Figure S7).
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To unravel any possible link between the genomic differentiation and geographic stratification in the sample we created a pruned subset of SNPs in approximate linkage equilibrium with each other in order to capture the structure that reflects geographic origin.
For each sample, we created an adjacency matrix A such that an element aij is equal to 1 when a flight exists between cities i and j and is equal to 0 otherwise.
From this sample, we created a subset of 1,055 unrelated adults (≥ 20 years of age).
For each DNA sample, we created two sequences using both AR11 and AF05 primers.
For comparison between samples we generated normalized clonality values (NC values) where the most clonal integration within each sample was normalized to a value of 1 (Fig. 2c).
To maximize the sample size, we created missing categories in potential confounders.
To compare the onset of significant between- and within-category classification accuracies, we created 10 000 bootstrapped samples by sampling with replacement.
In our study, we created 200 samples (with replacement) from the available observed sample.
To explore a possible specific relation between the mentioned comorbidities and QoL, we created contrasts between each of them versus the rest of the sample.
Thus, we created a sample dendrogram (S) and a lipids dendrogram (L).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com