{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/a-phylogenetic-scan-test-on-dirichlet-tree","title":"A phylogenetic scan test on Dirichlet-tree multinomial model for microbiome data","arxiv_id":"1610.08974","date":"2016-10-27","proceeding":null,"authors":["Yunfan Tang","Li Ma","Dan L. Niclolae"],"abstract":"In this paper we introduce the phylogenetic scan test (PhyloScan) for investigating cross-group differences in microbiome compositions using the Dirichlet-tree multinomial (DTM) model. DTM models the microbiome data through a cascade of independent local DMs on the internal nodes of the phylogenetic tree. Each of the local DMs captures the count distributions of a certain number of operational taxonomic units at a given resolution. Since distributional differences tend to occur in clusters along evolutionary lineages, we design a scan statistic over the phylogenetic tree to allow nodes to borrow signal strength from their parents and children. We also derive a formula to bound the tail probability of the scan statistic, and verify its accuracy through simulations. The PhyloScan procedure is applied to the American Gut dataset to identify taxa associated with diet habits. Empirical studies performed on this dataset show that PhyloScan achieves higher testing power in most cases.","url_abs":"http://arxiv.org/abs/1610.08974v2","url_pdf":"http://arxiv.org/pdf/1610.08974v2.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"links_only","authors_date_abstract":"arXiv metadata, CC0 1.0 (https://info.arxiv.org/help/license), from the Kaggle arXiv metadata snapshot of 2026-09-12"},"code_links":[{"paper_slug":"a-phylogenetic-scan-test-on-dirichlet-tree","repo_url":"https://github.com/yunfantang/PhyloScan","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":1,"framework":"none","reach":null}],"tasks":[],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}