🦠 A comprehensive R package for deep mining microbiome

Network construction, analysis, and comparison for microbial compositional data

This repo contains the R microshades package, which contains a color blind accessible color palette with 30 unique colors and functions for applying these colors to microbiome data.

Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat

Creation and selection of Parallel Factor Analysis models of longitudinal microbiome data.

A Bayesian model for the differential abundance analysis of microbiome sequencing data

R package for fetching and parsing data of the Human Microbiome Compendium

Code to reproduce the analyses from the paper "Benchmarking microbiome transformations favors experimental quantitative approaches to address compositionality and sampling depth biases"

A Shiny interface for the MicrobiomeStat R package, designed to facilitate analysis and visualization of microbiome data.

Analyzing microbiome data from Gigante, Barro Colorado, Panama. Part of an Undergraduate Thesis (defended on May 13th, 2022).

This is the data and R code associated with our paper "A t-SNE Based Classification Approach to Compositional Microbiome Data"

CMiNet is an R package designed to generate consensus microbiome networks by integrating results from multiple network construction algorithms

A project to evaluate the differences in bacterial association networks from rainforest and converted pasturelands in the Colombian Amazon region using CCLasso and SPRING inference methods

CMIMN: Conditional Mutual Information for constructing Microbiome Network

This repository contains R scripts for data analyses and visualization.

short-read amplicon data visualization suite

CMiNetShinyApp designed to generate consensus microbiome networks by integrating results from multiple network construction algorithms