assertthat, stats, purrr, stringr, dplyr, statmod, magrittr,
MASS, tweedie, ggplot2, cplm

Creates ideal data for all distributions in the generalized
linear model framework.
assertthat, stats, stringr, dplyr, statmod, magrittr, MASS,
tweedie, ggplot2, cplm
testthat (>= 3.0.0), knitr, rmarkdown, covr

permutation based global test with deviance as test statistic

Bi-Level Optimization of Metabolic Network Models
Initial metabolic networks often inaccurately predict in-silico growth or non-growth if compared to in-vivo data. This package refines metabolic network models by making networks changes (i.e., removing, adding, changing reversibility of reactions; adding and removing biomass metabolites) and simultaneously matching sets of experimental growth and non-growth data (e.g., KO-mutants, mutants grown under different media conditions,...)

Generate functions to get or set global options

Generate Functions to Get or Set Global Options
It provides more controls on the option values such as validation
and filtering on the values, making options invisible or private.

It provides more configurations on the option values such as validation
and filtering on the values, making options invisible or private.

testthat (>= 1.0.0), knitr, markdown, GetoptLong

Contains many functions useful for univariate outlier detection, permutation-based t-test, permutation-based chi-square test, visualization of residuals, and bootstrap Cramer's V, plotting of the results of the Mann-Whitney and Kruskall-Wallis test, calculation of Brainerd-Robinson similarity coefficient and subsequent clustering, validation of logistic regression models, optimism-corrected AUC, robust Bland-Altman plot, calculation of posterior probability for different chronological relationships between two Bayesian radiocarbon phases, point pattern analysis, landform classification, clustering of spatial features.
archdata (>= 1.2), gdistance (>= 1.2-2), resample (>= 0.4)

Contains many functions useful for univariate outlier detection, permutation-based t-test, permutation-based chi-square test, visualization of residuals, and bootstrap 'Cramer V', plotting of the results of the 'Mann-Whitney' and 'Kruskal-Wallis' test, calculation of 'Brainerd-Robinson' similarity coefficient and subsequent clustering, validation of logistic regression models, optimism-corrected AUC, robust 'Bland-Altman' plot, calculation of posterior probability for different chronological relationships between two Bayesian radiocarbon phases, point pattern analysis, clustering of spatial features.