microbAIDeR - An ensemble of functions for easier and quicker preliminary microbiome analyses.

microbAIDeR is a R-package made for easy preliminar microbiome analyses starting from QIIME2 outputs. The package provides all-in-one functions for statistical analysis and graphs generation, as well as useful function for data analyses in R. This package requires RTools to be installed in order to compiled the required dependancies. Please follow the developer's instruction from the Comprehensive R Archive Network to install RTools on your platform.

Installation of the package and the required dependancies

install.packages('devtools')
devtools::install_github("https://github.com/FabbriniMarco/microbAIDeR.git")
library(microbAIDeR)
microbAIDeR_install_dependancies() #To install all the packages that are necessary

Depends: devtools, pairwiseAdonis, parallel, doParallel, openxlsx, tidyr, tibble, dplyr, ggplot2, ggsignif, gridExtra, tidyverse, stringr, vegan, cowplot, gtable, grid

Examples

Usage example for this package are included in the Wiki section.

Citation

If you use this R package please cite this GitHub in your article:

@Manual{,
  title = {microbAIDeR: An ensemble of functions for easier and quicker preliminary microbiome analyses},
  author = {Marco Fabbrini, Gabriele Conti},
  year = {2023},
  note = {R package version 0.2.1 - Release 05-2024},
  url = {https://github.com/FabbriniMarco/microbAIDeR.git},
}

Example:

Fabbrini, M. & Conti, G.,(2023) microbAIDeR - An ensemble of functions for easier and quicker preliminary microbiome analyses (v0.2.1 release 05-2024). Available on Github: https://github.com/FabbriniMarco/microbAIDeR/