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These distribution patterns were similar to those computed using the entire datasets.
The phylogenetic profiles obtained based on each housekeeping gene could then be compared with those obtained using the entire datasets.
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The structure of the state model is constructed as a preprocessing step using the entire dataset.
Note that these parameter estimates are obtained by fitting the model using the entire dataset.
To accomplish this, we created a random forest model using the entire dataset.
Prediction error was reduced by up to 8 fold when QSRR was based only on chromatographically similar compounds rather than using the entire dataset.
The results showed that RANSAC-PLS is a promising strategy to identify unique metabolites that provide additional hints for phenotype improvement, which could not be detected by traditional PLS modeling using the entire dataset.
Using the entire dataset with the proposed added features, the best recognition rate achieved is 88.4% using CA as classifier compared to 70.3 and 60.6% using SVM and NN, respectively, and thus an improvement of CA of 18.1 and 27.8% over SVM and NN, respectively.
For each case study we re-built models using the entire dataset but leaving out the data for any warfarin-drug pairs, or the data for any simvastatin-drug pairs, respectively, instead of applying the models constructed during the 4-fold cross validations.
Because of the cross-nested nature of reviewers and manuscripts, simultaneous consideration of these variables as crossed random effects within the same logistic regression using the entire dataset exceeded the available computing capacity.
In these within-dataset experiments, the initial set of top 50 markers have been selected using the entire dataset, in order to reduce the effect of sensitivity in marker selection when comparing different pathway-based methods.
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