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Picante: R tools for integrating phylogenies and ecology
Open accessAbstract
Summary: Picante is a software package that provides a comprehensive set of tools for analyzing the phylogenetic and trait diversity of ecological communities. The package calculates phylogenetic diversity metrics, performs trait comparative analyses, manipulates phenotypic and phylogenetic data, and performs tests for phylogenetic signal in trait distributions, community structure and species interactions. Availability: Picante is a package for the R statistical language and environment written in R and C, released under a GPL v2 open-source license, and freely available on the web (http://picante.r-forge.r-project.org) and from CRAN (http://cran.r-project.org). Contact: skembel@uoregon.edu
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Cites
UniFrac: a New Phylogenetic Method for Comparing Microbial Communities
Lozupone, C., & Knight, R. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.12.8228-8235.2005 · Cited by 8,227
The merging of community ecology and phylogenetic biology
Cavender‐Bares, J., Kozak, K. H., Fine, P. V. A., & Kembel, S. W. (2009) · Ecology Letters · doi:10.1111/j.1461-0248.2009.01314.x · Cited by 2,321
Self-citation
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Cited by
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
McMurdie, P. J., & Holmes, S. (2013) · PLoS ONE · doi:10.1371/journal.pone.0061217 · Cited by 21,322
Jombart, T., Devillard, S., & Balloux, F. (2010) · BMC Genetics · doi:10.1186/1471-2156-11-94 · Cited by 4,963
Stochastic Community Assembly: Does It Matter in Microbial Ecology?
Zhou, J., & Ning, D. (2017) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00002-17 · Cited by 2,773
Jiao, S., Yang, Y., Xu, Y., Zhang, J., & Lu, Y. (2020) · The ISME Journal · doi:10.1038/s41396-019-0522-9 · Cited by 1,052
Burns, A. R., Stephens, W. Z., Stagaman, K., Wong, S., Rawls, J. F., Guillemin, K., & Bohannan, B. J. M. (2016) · The ISME Journal · doi:10.1038/ismej.2015.142 · Cited by 939
Metadata
- Authors
- Kembel, S. W., Cowan, P. D., Helmus, M. R., Cornwell, W. K., Morlon, H., Ackerly, D. D., Blomberg, S. P., & Webb, C. O.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2010-04-15
- Volume
- 26
- Issue
- 11
- Pages
- 1463-1464
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2133360663
- Cited by
- 6,243
- References
- 2
- FWCI
- 106.92
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Kembel, S. W., Cowan, P. D., Helmus, M. R., Cornwell, W. K., Morlon, H., Ackerly, D. D., Blomberg, S. P., & Webb, C. O. (2010). Picante: R tools for integrating phylogenies and ecology. Bioinformatics. https://doi.org/10.1093/bioinformatics/btq166
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