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Attributable length of stay was calculated as the median pairwise difference between CDAD case-patients and controls.
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The majority of VRE isolates from P7 and P15 each belonged to a single lineage (18/24 (75%%), and 18/21 866 %)), with a median pairwise SNP difference within each of these two clusters of 3 (range, 0 6) and 1 (range, 0 6), respectively.
According to Affymetrix protocols, samples with a median absolute pairwise difference (MAPD) ≥0.4 were discarded from further analyses.
In order to quantitate CN noise, we adapted a QC metric designed for microarray data, the median absolute pairwise difference (MAPD) algorithm (Affymetrix, 2008).
Copy numbers were estimated with the NEXUS software and only samples that passed Affymetrix quality control metrics (median absolute pairwise difference [MAPD] value of ≤ 0.6) were considered [ 12].
The difference in median pairwise length of stay was compared with the Wilcoxon signed-rank test.
This variation does not reflect geographic differences in sampling intensity because no clear relationship was observed between median pairwise ordination distances and the number of viral isolates considered (correlation coefficient < 0.1; Figure S8).
Moreover, although most loci show strong genetic structure (median pairwise FST at silent sites among all populations = 0.52), differentiation is lower with the German population (median pairwise FST = 0.21).
The average number of pairwise difference, Watterson's estimator (θw) [25] and haplotype diversity were calculated.
This would appear as a pairwise difference.
The median maximum ΔMAF is 15.2%, while the median pairwise ΔMAF are 12.1%, 8.8%, and 7.2%.
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