
doi: 10.1186/1471-2105-9-307 , 10.5282/ubm/epub.2821 , 10.5281/zenodo.13509435 , 10.5281/zenodo.13509436
pmid: 18620558
pmc: PMC2491635
doi: 10.1186/1471-2105-9-307 , 10.5282/ubm/epub.2821 , 10.5281/zenodo.13509435 , 10.5281/zenodo.13509436
pmid: 18620558
pmc: PMC2491635
Random forests are becoming increasingly popular in many scientific fields because they can cope with ``small n large p'' problems, complex interactions and even highly correlated predictor variables. Their variable importance measures have recently been suggested as screening tools for, e.g., gene expression studies. However, these variable importance measures show a bias towards correlated predictor variables. We identify two mechanisms responsible for this finding: (i) A preference for the selection of correlated predictors in the tree building process and (ii) an additional advantage for correlated predictor variables induced by the unconditional permutation scheme that is employed in the computation of the variable importance measure. Based on these considerations we develop a new, conditional permutation scheme for the computation of the variable importance measure. The resulting conditional variable importance is shown to reflect the true impact of each predictor variable more reliably than the original marginal approach.
Biometry, QH301-705.5, Computer applications to medicine. Medical informatics, R858-859.7, bats, bat, Biochemistry, Statistics, Nonparametric, Major Histocompatibility Complex, Chiroptera, Animalia, Amino Acid Sequence, Biology (General), Chordata, Molecular Biology, Binding Sites, Methodology Article, Decision Trees, Computational Biology, Biodiversity, Computer Science Applications, Research Design, Mammalia, Regression Analysis, Factor Analysis, Statistical, Feature selection, screening, bagging, CART
Biometry, QH301-705.5, Computer applications to medicine. Medical informatics, R858-859.7, bats, bat, Biochemistry, Statistics, Nonparametric, Major Histocompatibility Complex, Chiroptera, Animalia, Amino Acid Sequence, Biology (General), Chordata, Molecular Biology, Binding Sites, Methodology Article, Decision Trees, Computational Biology, Biodiversity, Computer Science Applications, Research Design, Mammalia, Regression Analysis, Factor Analysis, Statistical, Feature selection, screening, bagging, CART
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