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As a template, we selected contigs with an average coverage of more than 20 and less than 10,000 reads.
As we aimed to detect several pathogens from dried CSF spots using single target real-time PCR assays, in order to have sufficient DNA template, we selected a final elution volume of 100 μL, accepting a very small reduction in sensitivity.
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To generate a query template, we roughly selected amino acid residues that play catalytic roles in enzyme proteins.
From the templates with the Advice Use Case structure, we selected the template from Bonifacio and Borba (2009), because this is the newest with this kind of structure.
So, when we select templates, the "ideal" templates should have these advantages: (1) The difference of these templates is big enough; (2) These templates are partially overlapping images.
First, we select template individuals based on maximal differences among the template individuals, whereas Pasaniuc et al. (2010) select template individuals based on similarity to the imputation target.
In this case we used the top-scoring template proposed by RF when the predicted TM-distance is <0.5, while in the other cases we select the template using the CM score to resort the first 50 models.
From the top of this ranking list, we select non-redundant templates, requiring each new template to cover at least 30 additional residues that are not covered by selected higher-ranked templates.
Go back to where you have downloaded or extracted the preset template or templates, select them, and copy them.
In addition, the memory overhead for all five doctors was around 236.2, 47.2, and 73.2 MB for using all templates, selected template representatives, and compressed template representatives, respectively.
In Figure 9, we show how the percentages of template representatives selected from the total templates affect phone accuracies for MDTS and MLTS with their respectively compatible distances.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com