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breakaway
View on CRAN: Click
here
Download and install breakaway package within the R console
Install from CRAN:
install.packages("breakaway")
Install from Github:
library("remotes")
install_github("cran/breakaway")
Install by package version:
library("remotes")
install_version("breakaway", "4.8.4")
Attach the package and use:
library("breakaway")
Maintained by
Amy D Willis
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2014-08-04
Latest Update: 2022-11-22
Description:
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) , Willis et al. (2017) , and Willis (2016) , as well as the most commonly used estimates, including the objective Bayes approach described in Barger and Bunge (2010) .
How to cite:
Amy D Willis (2014). breakaway: Species Richness Estimation and Modeling. R package version 4.8.4, https://cran.r-project.org/web/packages/breakaway
Previous versions and publish date:
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Other R packages that breakaway depends,
imports, suggests or enhances
Functions, R codes and Examples using
the breakaway R package
Some associated functions: F_test . alpha_estimate . alpha_estimates . apples . betta . betta_lincom . betta_pic . betta_random . breakaway . breakaway_nof1 . build_frequency_count_tables . chao1 . chao1_bc . chao_bunge . chao_shen . check_format . convert . cutoff_wrap . get_F_stat . good_turing . hawaii . kemp . make_design_matrix . make_frequency_count_table . objective_bayes_geometric . objective_bayes_mixedgeo . objective_bayes_negbin . objective_bayes_poisson . pasolli_et_al . physeq_wrap . pipe . plot.alpha_estimates . poisson_model . poisson_model_nof1 . proportions_instead . rnbinomtable . rztnbinomtable . sample_inverse_simpson . sample_richness . sample_shannon . sample_shannon_e . sample_simpson . sample_size_estimate . sample_size_figure . simulate_betta . simulate_betta_random . soil_phylo . test_submodel . toy_metadata . toy_otu_table . toy_taxonomy . true_gini . true_hill . true_inverse_simpson . true_shannon . true_shannon_e . true_simpson . wlrm_transformed . wlrm_untransformed .
Some associated R codes: F_test.R . alpha_sample.R . alpha_true.R . bData.R . betta_lincom.R . class_alpha_estimate.R . class_alpha_estimates.R . get_F_stat.R . model_betta.R . model_betta_random.R . physeq_wrap.R . plot_alpha_estimates.R . plot_betta.R . richness_breakaway.R . richness_breakaway_nof1.R . richness_chao1.R . richness_chao1_bc.R . richness_chao_bunge.R . richness_good_turing.R . richness_kemp.R . richness_objective_bayes.R . richness_poisson.R . richness_poisson_nof1.R . richness_sample.R . richness_wlrm_t.R . richness_wlrm_ut.R . shannon_chao_shen.R . simulate_betta.R . simulate_betta_random.R . test_submodel.R . tools_breakaway.R . tools_build.R . tools_convert.R . tools_covariate_matrix.R . tools_cutoff_wrap.R . tools_sample_size.R . tools_simulate.R . utils-pipe.R . Full breakaway package functions and examples
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