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WMHs in the mask were automatically identified using a threshold of three standard deviations above the mean FLAIR signal intensity (King et al., 2013).
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Log ratios were smoothed by DNAcopy using default values and copy number variation was detected by DNAcopy using a threshold of two standard deviations.
The signals were normalized and selected as differentially changing between the two species using a threshold of two.
The analysis was conducted using a threshold of two or three standard deviations above this mean fold change.
Using a threshold of two standard deviations above the mean, cases of rejection could be identified with high accuracy.
We therefore removed all the clusters that can be explained by strand invasion, using a threshold of two mismatches.
In the LGE images the size of myocardial infarction was measured by using a threshold of two standard deviations of the remote myocardium [ 5, 27].
When the number of methylated genes was dichotomized using a threshold of six methylated genes, however, the group with six or more methylated genes had significantly decreased survival compared with tumors with less than six methylated genes (P = 0.022; Figure 3), but was not a significant independent prognostic factor in Cox regression (P = 0.057).
If we use a threshold of two times the ratio of the number of estimated parameters and the number of observations, seven observations are identified as potentially influential.
To transform the read counts into the alphabet states, we used a threshold of five reads supporting only one parental allele for assigning the homozygous genotypes (AA or BB) because a heterozygous position covered by five reads has less than a 5% chance of presenting only one allele.
To ensure that our algorithm predicted specific terms as well, at the top of the ranked lists, we extracted the number of gene associations per term for MF category under two circumstances (1) using a threshold of 30 for five sets of 100 genes each and (2) for a given set at different thresholds ranging from 10 to 50 in steps of 10.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com