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This problem is relevant for the inferences that stem from the data, given that individualistic or ecological fallacies may emerge if the dataset characteristics are not correctly interpreted in terms of representation, similarity or heterogeneity.
On the other hand, when "inconsistent" inputs are used, the performance is, in general, poor and may be significantly affected (in positive or in negative) by the dataset characteristics.
A detailed description of the dataset characteristics can be found in HapMap (2005).
In future work, we will investigate the reasons for the results of the PE subset selection experiments to try to understand how the dataset characteristics and ALLPATHS-LG characteristics affect the results and then improve the subset selection methods.
Our conclusion is that different methods can be used to assign the input p-values to the list of analyzed transcripts and to define seeds and candidates, but it is advisable to base the choice on the dataset characteristics.
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We determined the optimal criteria for minimal read length, minimal quality and requirement of mate-pair reads for each isolate based on the different dataset characteristics using FastQC v0.10.0 [ 31].
We can then count the number of links over time for the five types of relationships asked in the questionnaires from "Dataset characteristics" section.
The first approach is based on simulations designed to understand qualitatively the relationships among dataset characteristics and optimal split proportions.
The causes of the discrepancies between the plots for toy datasets and real-life datasets are based on the differences in dataset characteristics between toy datasets and real-life datasets.
Thus, the best analytic methods depend on dataset characteristics, especially the day-of-week effect, and could be varied by manual or automated selection.
A summary of patients demographics and dataset characteristics of the pooled dataset is depicted in Table 1.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com