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For a nominal Type I error rate of α = 0.05, we would expect 5% (or 0.05) of the bootstrap samples to give a (false-positive) significant result under the true null hypothesis of no difference in distributions.
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On the other hand, bagging uses bootstrap samples to build the classifiers.
We use 10k bootstrap samples to estimate the confidence interval of the correlation coefficient.
Bootstrap analysis of 1,000 replicates was performed by creating series of bootstrap samples to test tree branch reliability.
Thus, we resort to bootstrap to give a bootstrap confidence interval (CI) for the LS score.
As a matter of fact, a resampling test based on 10,000 bootstrap samples gave a p-value of 0. Details of the resamlping methods can be found in the next subsection.
But as we have seen, the larger the number of items, the fewer bootstrap samples are necessary given everything else is held constant.
Cross validation with 1000 bootstrap samples gave a satisfactory result (P = 0.011).
Finally, we provide an easy to apply formula for identifying the necessary number of bootstrap samples allowing to limit the bootstrap-related error to a freely definable degree.
Bootstrapping of any one sample was based on 1000 bootstrap samples a number that was found to give consistent results for the five examples.
Note that each fish agent applies a bootstrap sampling on the given data D instead of working on the whole D, because it should not be computed on the same data on which the classification rule has been trained but instead is computed on independent data that contains new observations [ 14].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com