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A Similarity Measure Based on Species Proportions
Abstract
There are several indices for measuring the similarity of two populations, including the ratio of the number of shared species to the number of distinct species (Jaccard's index) and the conditional probability of observing a shared species (Smith et al., 1996 Smith , W. , Solow , A. R. , Preston , P. E. ( 1996 ). An estimator of species overlap using a modified beta-binomial model. Biometrics 52 : 1472 – 1477 . [CSA] [CROSSREF] [Crossref], [Web of Science ®] , [Google Scholar]). However, these indices only take into account the number of species and species proportions of shared species. In this article, we propose a new similarity index which includes the species proportions of both the shared and non shared species in each population, and also propose a Nonparametric Maximum Likelihood Estimator (NPMLE) for this index. Bootstrap and delta methods are used to evaluate the standard errors of the NPMLE. Based on a loss function, we also compare a class of nonparametric estimators for the proposed index in various situations.
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Cited by
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Kong, H. H., Oh, J., Deming, C., Conlan, S., Grice, E. A., Beatson, M. A., Nomicos, E., Polley, E. C., Komarow, H. D., Program, N. C. S., et al. (2012) · Genome Research · doi:10.1101/gr.131029.111 · Cited by 1,808
Dominant and diet-responsive groups of bacteria within the human colonic microbiota
Walker, A. W., Ince, J., Duncan, S. H., Webster, L. M., Holtrop, G., Ze, X., Brown, D., Stares, M. D., Scott, P., Bergerat, A., et al. (2011) · The ISME Journal · doi:10.1038/ismej.2010.118 · Cited by 1,632
Topographic diversity of fungal and bacterial communities in human skin
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Biogeography and individuality shape function in the human skin metagenome
Program, N. C. S., Oh, J., Byrd, A. L., Deming, C., Conlan, S., Kong, H. H., & Segre, J. A. (2014) · Nature · doi:10.1038/nature13786 · Cited by 1,148
Metadata
- Authors
- Yue, J. C., & Clayton, M. K.
- Venue
- Communications in Statistics - Theory and Methods
- Publisher
- Informa UK Limited
- Published
- 2005-11
- Volume
- 34
- Issue
- 11
- Pages
- 2123-2131
- ISSN
- 0361-0926 (ISSN-L)
- 1532-415X
- OpenAlex
- W2071976711
- Cited by
- 482
- References
- 0
- FWCI
- 3.75
- Type
- journal article
- Language
- en
- Open access
- closed
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- Yue, J. C., & Clayton, M. K. (2005). A Similarity Measure Based on Species Proportions. Communications in Statistics - Theory and Methods. https://doi.org/10.1080/sta-200066418
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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