Bayesian Additive Regression Trees (BART) is a statistical sum of trees model. It can be considered a Bayesian version of machine learning tree ensemble methods where the individual trees are the base learners. However for datasets where the number of variables p is large (e.g. p > 5, 000) the algorithm can become prohibitively expensive, computationally. Another method which is popular for high dimensional data is random forests, a machine learning algorithm which grows trees using a greedy search for the best split points. However, as it is not a statistical model, it cannot produce probabilistic estimates or predictions. We propose an alternative algorithm for BART called BART-BMA, which uses Bayesian Model Averaging and a greedy search algorithm to produce a model which is much more efficient than BART for datasets with large p. BART-BMA incorporates elements of both BART and random forests to offer a model-based algorithm which can deal with high-dimensional data.
We propose to change the default P-value threshold for statistical significance from 0.05 to 0.005 for claims of new discoveries. T he lack of reproducibility of scientific studies has caused growing concern over the credibility of claims of new discoveries based on 'statistically significant' findings. There has been much progress toward documenting and addressing several causes of this lack of reproducibility (for example, multiple testing, P-hacking, publication bias and under-powered studies). However, we believe that a leading cause of non-reproducibility has not yet been adequately addressed: statistical standards of evidence for claiming new discoveries in many fields of science are simply too low. Associating statistically significant findings with P < 0.05 results in a high rate of false positives even in the absence of other experimental, procedural and reporting problems.For fields where the threshold for defining statistical significance for new discoveries is P < 0.05, we propose a change to P < 0.005. This simple step would immediately improve the reproducibility of scientific research in many fields. Results that would currently be called significant but do not meet the new threshold should instead be called suggestive. While statisticians have known the relative weakness of using P ≈ 0.05 as a threshold for discovery and the proposal to lower it to 0.005 is not new 1,2 , a critical mass of researchers now endorse this change.We restrict our recommendation to claims of discovery of new effects. We do not address the appropriate threshold for confirmatory or contradictory replications of existing claims. We also do not advocate changes to discovery thresholds in fields that have already adopted more stringent standards (for example, genomics and high-energy physics research; see the 'Potential objections' section below).We also restrict our recommendation to studies that conduct null hypothesis significance tests. We have diverse views about how best to improve reproducibility, and many of us believe that other ways of summarizing the data, such as Bayes factors or other posterior summaries based on clearly articulated model assumptions, are preferable to P values. However, changing the P value threshold is simple, aligns with the training undertaken by many researchers, and might quickly achieve broad acceptance.
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