breakaway: Species Richness Estimation and Modeling

Understanding the drivers of microbial diversity is an important frontier of microbial ecology, and investigating the diversity of samples from microbial ecosystems is a common step in any microbiome analysis. 'breakaway' is the premier package for statistical analysis of microbial diversity. 'breakaway' implements the latest and greatest estimates of species richness, described in Willis and Bunge (2015) <doi:10.1111/biom.12332>, Willis et al. (2017) <doi:10.1111/rssc.12206>, and Willis (2016) <doi:10.48550/arXiv.1604.02598>, as well as the most commonly used estimates, including the objective Bayes approach described in Barger and Bunge (2010) <doi:10.1214/10-BA527>.

Version: 4.8.4
Depends: R (≥ 3.5.0)
Imports: ggplot2, graphics, lme4, magrittr, MASS, phyloseq, stats, tibble, utils
Suggests: devtools, knitr, plyr, RCurl, rmarkdown, testthat, dplyr
Published: 2022-11-22
Author: Amy D Willis [aut, cre], Bryan D Martin [aut], Pauline Trinh [aut], Sarah Teichman [aut], David Clausen [aut], Kathryn Barger [aut], John Bunge [aut]
Maintainer: Amy D Willis <adwillis at uw.edu>
BugReports: https://github.com/adw96/breakaway/issues
License: GPL-2
URL: https://adw96.github.io/breakaway/
NeedsCompilation: no
Materials: README
CRAN checks: breakaway results

Documentation:

Reference manual: breakaway.pdf
Vignettes: Getting started with breakaway
intro-hypothesis-testing
intro-diversity-estimation

Downloads:

Package source: breakaway_4.8.4.tar.gz
Windows binaries: r-devel: breakaway_4.8.4.zip, r-release: breakaway_4.8.4.zip, r-oldrel: breakaway_4.8.4.zip
macOS binaries: r-release (arm64): not available, r-oldrel (arm64): breakaway_4.8.4.tgz, r-release (x86_64): not available
Old sources: breakaway archive

Reverse dependencies:

Reverse suggests: VDJdive

Linking:

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