boyuren158/DirFactor: Dependent Dirichlet processes factor model for nonparametric ordination fo microbiome data

DirFactor is a Bayesian nonparametric model for analyzing microbiome data via OTU table. It assumes a Dependent Dirichlet processes prior on the probabilities of species and by MCMC simulation, identifies a set of low dimensional latent factors that explain most of the variability of the distributions of species across biological samples. The model adaptively selects the dimension of the latent factor space and enables nonparametric ordination of biological samples. The application of this package mainly focuses on ordination of microbial abundance data. On top of the traditional ordination plots, we provide a visualization of the uncertainty of the ordination as well.

Getting started

Package details

AuthorBoyu Ren <[email protected]>
MaintainerBoyu Ren <[email protected]>
LicenseMIT + file LICENSE
Version0.99.1
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("boyuren158/DirFactor")
boyuren158/DirFactor documentation built on May 13, 2019, 1:38 a.m.