Microbial Community Ecology Data Analysis
Create microtable object to store and manage all the basic data.
Copy an R6 class object
Remove all factors in a data frame
Introduction to microeco package ([https://github.com/ChiLiubio/microe...
Clean up the taxonomic table to make taxonomic assignments consistent.
Create trans_abund object for taxonomic abundance visualization.
Create trans_alpha object for alpha diversity statistics and visuali...
Create trans_beta object for beta-diversity analysis
Create trans_classifier object for machine-learning-based model pred...
Create trans_diff object for the differential analysis on the taxono...
Create trans_env object to analyze the association between environme...
Create trans_func object for functional prediction.
Create trans_network object for network analysis.
Feature abundance normalization/transformation.
Create trans_nullmodel object for null model related analysis.
Create trans_venn object for the Venn diagram, petal plot and UpSet ...
A series of statistical and plotting approaches in microbial community ecology based on the R6 class. The classes are designed for data preprocessing, taxa abundance plotting, alpha diversity analysis, beta diversity analysis, differential abundance test, null model analysis, network analysis, machine learning, environmental data analysis and functional analysis.