On the marginal likelihood and cross-validation
Summary In Bayesian statistics, the marginal likelihood, also known as the evidence, is used to evaluate model fit as it quantifies the joint probability of the data under the prior. In contrast, non-Bayesian models are typically compared using cross-validation on held-out data, either through $k$-f...
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Veröffentlicht in: | Biometrika 2020-06, Vol.107 (2), p.489-496 |
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creator | Fong, E Holmes, C C |
description | Summary
In Bayesian statistics, the marginal likelihood, also known as the evidence, is used to evaluate model fit as it quantifies the joint probability of the data under the prior. In contrast, non-Bayesian models are typically compared using cross-validation on held-out data, either through $k$-fold partitioning or leave-$p$-out subsampling. We show that the marginal likelihood is formally equivalent to exhaustive leave-$p$-out crossvalidation averaged over all values of $p$ and all held-out test sets when using the log posterior predictive probability as the scoring rule. Moreover, the log posterior predictive score is the only coherent scoring rule under data exchangeability. This offers new insight into the marginal likelihood and cross-validation, and highlights the potential sensitivity of the marginal likelihood to the choice of the prior. We suggest an alternative approach using cumulative cross-validation following a preparatory training phase. Our work has connections to prequential analysis and intrinsic Bayes factors, but is motivated in a different way. |
doi_str_mv | 10.1093/biomet/asz077 |
format | Article |
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In Bayesian statistics, the marginal likelihood, also known as the evidence, is used to evaluate model fit as it quantifies the joint probability of the data under the prior. In contrast, non-Bayesian models are typically compared using cross-validation on held-out data, either through $k$-fold partitioning or leave-$p$-out subsampling. We show that the marginal likelihood is formally equivalent to exhaustive leave-$p$-out crossvalidation averaged over all values of $p$ and all held-out test sets when using the log posterior predictive probability as the scoring rule. Moreover, the log posterior predictive score is the only coherent scoring rule under data exchangeability. This offers new insight into the marginal likelihood and cross-validation, and highlights the potential sensitivity of the marginal likelihood to the choice of the prior. We suggest an alternative approach using cumulative cross-validation following a preparatory training phase. Our work has connections to prequential analysis and intrinsic Bayes factors, but is motivated in a different way.</description><identifier>ISSN: 0006-3444</identifier><identifier>EISSN: 1464-3510</identifier><identifier>DOI: 10.1093/biomet/asz077</identifier><language>eng</language><publisher>Oxford: Oxford University Press</publisher><subject>Bayesian analysis ; Mathematical models ; Statistical analysis ; Test sets</subject><ispartof>Biometrika, 2020-06, Vol.107 (2), p.489-496</ispartof><rights>2020 Biometrika Trust 2020</rights><rights>2020 Biometrika Trust</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c403t-3ea5cb75d084377babbd73e25b2ab48351a9d5f560d3a24e7feecad68fac94493</citedby><cites>FETCH-LOGICAL-c403t-3ea5cb75d084377babbd73e25b2ab48351a9d5f560d3a24e7feecad68fac94493</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,1584,27923,27924</link.rule.ids></links><search><creatorcontrib>Fong, E</creatorcontrib><creatorcontrib>Holmes, C C</creatorcontrib><title>On the marginal likelihood and cross-validation</title><title>Biometrika</title><description>Summary
In Bayesian statistics, the marginal likelihood, also known as the evidence, is used to evaluate model fit as it quantifies the joint probability of the data under the prior. In contrast, non-Bayesian models are typically compared using cross-validation on held-out data, either through $k$-fold partitioning or leave-$p$-out subsampling. We show that the marginal likelihood is formally equivalent to exhaustive leave-$p$-out crossvalidation averaged over all values of $p$ and all held-out test sets when using the log posterior predictive probability as the scoring rule. Moreover, the log posterior predictive score is the only coherent scoring rule under data exchangeability. This offers new insight into the marginal likelihood and cross-validation, and highlights the potential sensitivity of the marginal likelihood to the choice of the prior. We suggest an alternative approach using cumulative cross-validation following a preparatory training phase. Our work has connections to prequential analysis and intrinsic Bayes factors, but is motivated in a different way.</description><subject>Bayesian analysis</subject><subject>Mathematical models</subject><subject>Statistical analysis</subject><subject>Test sets</subject><issn>0006-3444</issn><issn>1464-3510</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><sourceid>TOX</sourceid><recordid>eNqFkE1LxDAQQIMoWFeP3gtevMRNmq_2KIuuwsJe9BwmTepm7TY1aQX99Xatd0_DwGN48xC6puSOkootjQ8HNywhfROlTlBGueSYCUpOUUYIkZhxzs_RRUr74yqFzNBy2-XDzuUHiG--gzZv_btr_S4Em0Nn8zqGlPAntN7C4EN3ic4aaJO7-psL9Pr48LJ6wpvt-nl1v8E1J2zAzIGojRKWlJwpZcAYq5grhCnA8HKSgsqKRkhiGRTcqca5GqwsG6grziu2QDfz3T6Gj9GlQe_DGCfBpAteVCUVQtGJwjP1qxldo_vop1e-NCX62ETPTfTcZOJvZz6M_T_oD_4-ZJg</recordid><startdate>20200601</startdate><enddate>20200601</enddate><creator>Fong, E</creator><creator>Holmes, C C</creator><general>Oxford University Press</general><general>Oxford Publishing Limited (England)</general><scope>TOX</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QO</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope></search><sort><creationdate>20200601</creationdate><title>On the marginal likelihood and cross-validation</title><author>Fong, E ; Holmes, C C</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c403t-3ea5cb75d084377babbd73e25b2ab48351a9d5f560d3a24e7feecad68fac94493</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Bayesian analysis</topic><topic>Mathematical models</topic><topic>Statistical analysis</topic><topic>Test sets</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Fong, E</creatorcontrib><creatorcontrib>Holmes, C C</creatorcontrib><collection>Oxford Journals Open Access Collection</collection><collection>CrossRef</collection><collection>Biotechnology Research Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><jtitle>Biometrika</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Fong, E</au><au>Holmes, C C</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>On the marginal likelihood and cross-validation</atitle><jtitle>Biometrika</jtitle><date>2020-06-01</date><risdate>2020</risdate><volume>107</volume><issue>2</issue><spage>489</spage><epage>496</epage><pages>489-496</pages><issn>0006-3444</issn><eissn>1464-3510</eissn><abstract>Summary
In Bayesian statistics, the marginal likelihood, also known as the evidence, is used to evaluate model fit as it quantifies the joint probability of the data under the prior. In contrast, non-Bayesian models are typically compared using cross-validation on held-out data, either through $k$-fold partitioning or leave-$p$-out subsampling. We show that the marginal likelihood is formally equivalent to exhaustive leave-$p$-out crossvalidation averaged over all values of $p$ and all held-out test sets when using the log posterior predictive probability as the scoring rule. Moreover, the log posterior predictive score is the only coherent scoring rule under data exchangeability. This offers new insight into the marginal likelihood and cross-validation, and highlights the potential sensitivity of the marginal likelihood to the choice of the prior. We suggest an alternative approach using cumulative cross-validation following a preparatory training phase. Our work has connections to prequential analysis and intrinsic Bayes factors, but is motivated in a different way.</abstract><cop>Oxford</cop><pub>Oxford University Press</pub><doi>10.1093/biomet/asz077</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Bayesian analysis Mathematical models Statistical analysis Test sets |
title | On the marginal likelihood and cross-validation |
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